Analysis of RNAseq data in R and Bioconductor (part 3)
http://rockefelleruniversity.github.io/RU_RNAseq/
{r, results='asis',include=TRUE,echo=FALSE} # if(params$isSlides != "yes"){ # cat("# RNAseq (part 3) # # --- # " # ) # # } # #
The data
In this session we will be reviewing the same data that we used in the first two sessions. This is the data from Christina Leslie’s lab at MSKCC on T-Reg cells and activated T-Reg cells. T-Reg data can be found on the Encode portal here and activated T-Reg data here
I have aligned all FQ to BAM and counted in genes and exons using Rsubread and summariseOverlaps() and then analysed this data for expression changes using DESeq2.
The data
All Gene and Exon counts can be found as .RData obects in data directory
Counts in genes can be found at - data/GeneCounts.RData
Counts in disjoint exons can be found at - data/ExonCounts.RData
Salmon transcript quantification output directories can be found under - data/Salmon/
The data
You can find an excel file of differential expression analysis for this comparison in the data directory.
- CSV file of differential expression results for activated versus resting T-cells - data/Group_Activated_minus_Resting.csv.
What we will cover
In our last session we will looked at how we can identify changes in gene expression from two separate methods to gene expression estimates and looked a little at the output from comparing differential expression levels using DESeq2.
In this session we will explore a few ways we can evaluate any enrichment for functionally related genes from our differential expression analysis. This helps us address common questions like:
Are genes related to “immune response” enriched in my set of significantly upregulated genes?
Do “cell cycle” genes change more between conditions then other genes?
Gene Sets
What we test and how we test?
There are many options available to us for both functions/pathways/categories (Gene set) we will test and the methods we can use to test these gene sets for enrichment in our analysis (Gene set Enrichment Analysis).
- Gene set - A named collection of genes.
- Gene Set enrichment Analysis - GSA - Broad term for correlating a set of genes with a condition/phenotype.
- Gene Set Enrichment Analysis - GSEA - Broad’s term for correlating a set of genes with a condition/phenotype.
Gene set testing
A frequent step in RNAseq analysis is to test whether any functionally related sets of genes are enriched within our differential expressed genes.
Sources of well curated gene sets include GO consortium (gene’s function, biological process and cellular localization), REACTOME (Biological Pathways) and MsigDB (Computationally and Experimentally derived).
Gene Ontology
The Gene Ontology consortium aims to provide a comprehensive resource of all the currently available knowledge regarding the functions of genes and gene products.
Functional categories of genes are broadly split into three main groups.
- Molecular functions. - Activity of a gene’s protein product.
- Biological processes. - Role of gene’s protein product.
- Cellular components. - Where in cell molecular function of protein product is performed.
Gene Ontology
The three sub categories of gene ontology are arranged in nested, structured graph with gene sets at the top of graph representing more general terms and those at the bottom more specific terms.
Reactome and KEGG
The Reactome and KEGG (Kyoto Encyclopedia of genes and genomes) contains information on genes’ membership and roles in molecular pathways.
These databases focus largely on metabolic and disease pathways, and allow us to investigate our genes in the context of not only functional roles but relative positions within pathways.
MsigDB
The molecular signatures database (MsigDB) is available from the Broad institute and provides a set of curated gene sets derived from sources such as GO, pathway databases, motif scans and even other experimental sets.
MsigDB databases are widely used in gene set enrichments analysis and are available as plain text, in formats used with the popular Java based gene set enrichment software GSEA. ]
]
Gene sets in Bioconductor
In R we can access information on these gene sets through database libraries (such as the Org.db.eg we have reviewed) such as GO.db, KEGG.db, reactome.db or by making use of libraries which allows us to our gene sets from parse plain text formats, GSEABase.
Gene sets
We have already reviewed how we can get information on genes using the Org.db packages in our previous sessions.
We can also have access to information on the gene sets themselves using some of the bioconductor resources including GO.db, KEGG.db, reactome.db packages.
Another rich source of gene sets can be found at the Molecular Signature DataBase (MSigDB) database.
MSigDB and Gene Set Collections
GSEA and MSigDB
The GSEA software and MSigDB gene set collections can be found at the Broad’s site
MSigDB
We have access to Human gene sets containing information on:
- H - hallmark gene sets
- C1 - positional gene sets
- C2 - curated gene sets
- C3 - motif gene sets
- C4 - computational gene sets
- C5 - GO gene sets
- C6 - oncogenic gene sets
- C7 - immunologic gene sets
MSigDB
The gmt (gene matrix transposed) is a GSEA specific format which is easy to edit and spreadsheet programs.
It contains tab separated space with lines containing gene sets of differing sizes.
Reading gmt
The GSEABase function getGmt allows us to import our gmt formatted gene set collection into a GeneSetCollection object. In this case we are reading in the Hallmarks gene set with gene symbols which we downloaded from the Broad website.
## GeneSetCollection
## names: HALLMARK_TNFA_SIGNALING_VIA_NFKB, HALLMARK_HYPOXIA, ..., HALLMARK_PANCREAS_BETA_CELLS (50 total)
## unique identifiers: JUNB, CXCL2, ..., SRP14 (4383 total)
## types in collection:
## geneIdType: NullIdentifier (1 total)
## collectionType: NullCollection (1 total)GeneSetCollection
The GeneSetCollection object can be subset as a list.
## GeneSetCollection
## names: HALLMARK_TNFA_SIGNALING_VIA_NFKB (1 total)
## unique identifiers: JUNB, CXCL2, ..., MXD1 (200 total)
## types in collection:
## geneIdType: NullIdentifier (1 total)
## collectionType: NullCollection (1 total)## setName: HALLMARK_TNFA_SIGNALING_VIA_NFKB
## geneIds: JUNB, CXCL2, ..., MXD1 (total: 200)
## geneIdType: Null
## collectionType: Null
## details: use 'details(object)'GeneSetCollection
We can access the names of gene sets using the names() accessor
## [1] "HALLMARK_TNFA_SIGNALING_VIA_NFKB"
## [2] "HALLMARK_HYPOXIA"
## [3] "HALLMARK_CHOLESTEROL_HOMEOSTASIS"
## [4] "HALLMARK_MITOTIC_SPINDLE"
## [5] "HALLMARK_WNT_BETA_CATENIN_SIGNALING"
## [6] "HALLMARK_TGF_BETA_SIGNALING"
## [7] "HALLMARK_IL6_JAK_STAT3_SIGNALING"
## [8] "HALLMARK_DNA_REPAIR"
## [9] "HALLMARK_G2M_CHECKPOINT"
## [10] "HALLMARK_APOPTOSIS"
## [11] "HALLMARK_NOTCH_SIGNALING"
## [12] "HALLMARK_ADIPOGENESIS"
## [13] "HALLMARK_ESTROGEN_RESPONSE_EARLY"
## [14] "HALLMARK_ESTROGEN_RESPONSE_LATE"
## [15] "HALLMARK_ANDROGEN_RESPONSE"
## [16] "HALLMARK_MYOGENESIS"
## [17] "HALLMARK_PROTEIN_SECRETION"
## [18] "HALLMARK_INTERFERON_ALPHA_RESPONSE"
## [19] "HALLMARK_INTERFERON_GAMMA_RESPONSE"
## [20] "HALLMARK_APICAL_JUNCTION"
## [21] "HALLMARK_APICAL_SURFACE"
## [22] "HALLMARK_HEDGEHOG_SIGNALING"
## [23] "HALLMARK_COMPLEMENT"
## [24] "HALLMARK_UNFOLDED_PROTEIN_RESPONSE"
## [25] "HALLMARK_PI3K_AKT_MTOR_SIGNALING"
## [26] "HALLMARK_MTORC1_SIGNALING"
## [27] "HALLMARK_E2F_TARGETS"
## [28] "HALLMARK_MYC_TARGETS_V1"
## [29] "HALLMARK_MYC_TARGETS_V2"
## [30] "HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION"
## [31] "HALLMARK_INFLAMMATORY_RESPONSE"
## [32] "HALLMARK_XENOBIOTIC_METABOLISM"
## [33] "HALLMARK_FATTY_ACID_METABOLISM"
## [34] "HALLMARK_OXIDATIVE_PHOSPHORYLATION"
## [35] "HALLMARK_GLYCOLYSIS"
## [36] "HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY"
## [37] "HALLMARK_P53_PATHWAY"
## [38] "HALLMARK_UV_RESPONSE_UP"
## [39] "HALLMARK_UV_RESPONSE_DN"
## [40] "HALLMARK_ANGIOGENESIS"
## [41] "HALLMARK_HEME_METABOLISM"
## [42] "HALLMARK_COAGULATION"
## [43] "HALLMARK_IL2_STAT5_SIGNALING"
## [44] "HALLMARK_BILE_ACID_METABOLISM"
## [45] "HALLMARK_PEROXISOME"
## [46] "HALLMARK_ALLOGRAFT_REJECTION"
## [47] "HALLMARK_SPERMATOGENESIS"
## [48] "HALLMARK_KRAS_SIGNALING_UP"
## [49] "HALLMARK_KRAS_SIGNALING_DN"
## [50] "HALLMARK_PANCREAS_BETA_CELLS"GeneSetCollection
The geneIDs() function returns a list named by gene set with each named element containing the genes (their IDS) contained within that set.
## $HALLMARK_TNFA_SIGNALING_VIA_NFKB
## [1] "JUNB" "CXCL2" "ATF3" "NFKBIA" "TNFAIP3" "PTGS2"
## [7] "CXCL1" "IER3" "CD83" "CCL20" "CXCL3" "MAFF"
## [13] "NFKB2" "TNFAIP2" "HBEGF" "KLF6" "BIRC3" "PLAUR"
## [19] "ZFP36" "ICAM1" "JUN" "EGR3" "IL1B" "BCL2A1"
## [25] "PPP1R15A" "ZC3H12A" "SOD2" "NR4A2" "IL1A" "RELB"
## [31] "TRAF1" "BTG2" "DUSP1" "MAP3K8" "ETS2" "F3"
## [37] "SDC4" "EGR1" "IL6" "TNF" "KDM6B" "NFKB1"
## [43] "LIF" "PTX3" "FOSL1" "NR4A1" "JAG1" "CCL4"
## [49] "GCH1" "CCL2" "RCAN1" "DUSP2" "EHD1" "IER2"
## [55] "REL" "CFLAR" "RIPK2" "NFKBIE" "NR4A3" "PHLDA1"
## [61] "IER5" "TNFSF9" "GEM" "GADD45A" "CXCL10" "PLK2"
## [67] "BHLHE40" "EGR2" "SOCS3" "SLC2A6" "PTGER4" "DUSP5"
## [73] "SERPINB2" "NFIL3" "SERPINE1" "TRIB1" "TIPARP" "RELA"
## [79] "BIRC2" "CXCL6" "LITAF" "TNFAIP6" "CD44" "INHBA"
## [85] "PLAU" "MYC" "TNFRSF9" "SGK1" "TNIP1" "NAMPT"
## [91] "FOSL2" "PNRC1" "ID2" "CD69" "IL7R" "EFNA1"
## [97] "PHLDA2" "PFKFB3" "CCL5" "YRDC" "IFNGR2" "SQSTM1"
## [103] "BTG3" "GADD45B" "KYNU" "G0S2" "BTG1" "MCL1"
## [109] "VEGFA" "MAP2K3" "CDKN1A" "CCN1" "TANK" "IFIT2"
## [115] "IL18" "TUBB2A" "IRF1" "FOS" "OLR1" "RHOB"
## [121] "AREG" "NINJ1" "ZBTB10" "PLPP3" "KLF4" "CXCL11"
## [127] "SAT1" "CSF1" "GPR183" "PMEPA1" "PTPRE" "TLR2"
## [133] "ACKR3" "KLF10" "MARCKS" "LAMB3" "CEBPB" "TRIP10"
## [139] "F2RL1" "KLF9" "LDLR" "TGIF1" "RNF19B" "DRAM1"
## [145] "B4GALT1" "DNAJB4" "CSF2" "PDE4B" "SNN" "PLEK"
## [151] "STAT5A" "DENND5A" "CCND1" "DDX58" "SPHK1" "CD80"
## [157] "TNFAIP8" "CCNL1" "FUT4" "CCRL2" "SPSB1" "TSC22D1"
## [163] "B4GALT5" "SIK1" "CLCF1" "NFE2L2" "FOSB" "PER1"
## [169] "NFAT5" "ATP2B1" "IL12B" "IL6ST" "SLC16A6" "ABCA1"
## [175] "HES1" "BCL6" "IRS2" "SLC2A3" "CEBPD" "IL23A"
## [181] "SMAD3" "TAP1" "MSC" "IFIH1" "IL15RA" "TNIP2"
## [187] "BCL3" "PANX1" "FJX1" "EDN1" "EIF1" "BMP2"
## [193] "DUSP4" "PDLIM5" "ICOSLG" "GFPT2" "KLF2" "TNC"
## [199] "SERPINB8" "MXD1"
##
## $HALLMARK_HYPOXIA
## [1] "PGK1" "PDK1" "GBE1" "PFKL" "ALDOA" "ENO2"
## [7] "PGM1" "NDRG1" "HK2" "ALDOC" "GPI" "MXI1"
## [13] "SLC2A1" "P4HA1" "ADM" "P4HA2" "ENO1" "PFKP"
## [19] "AK4" "FAM162A" "PFKFB3" "VEGFA" "BNIP3L" "TPI1"
## [25] "ERO1A" "KDM3A" "CCNG2" "LDHA" "GYS1" "GAPDH"
## [31] "BHLHE40" "ANGPTL4" "JUN" "SERPINE1" "LOX" "GCK"
## [37] "PPFIA4" "MAFF" "DDIT4" "SLC2A3" "IGFBP3" "NFIL3"
## [43] "FOS" "RBPJ" "HK1" "CITED2" "ISG20" "GALK1"
## [49] "WSB1" "PYGM" "STC1" "ZNF292" "BTG1" "PLIN2"
## [55] "CSRP2" "VLDLR" "JMJD6" "EXT1" "F3" "PDK3"
## [61] "ANKZF1" "UGP2" "ALDOB" "STC2" "ERRFI1" "ENO3"
## [67] "PNRC1" "HMOX1" "PGF" "GAPDHS" "CHST2" "TMEM45A"
## [73] "BCAN" "ATF3" "CAV1" "AMPD3" "GPC3" "NDST1"
## [79] "IRS2" "SAP30" "GAA" "SDC4" "STBD1" "IER3"
## [85] "PKLR" "IGFBP1" "PLAUR" "CAVIN3" "CCN5" "LARGE1"
## [91] "NOCT" "S100A4" "RRAGD" "ZFP36" "EGFR" "EDN2"
## [97] "IDS" "CDKN1A" "RORA" "DUSP1" "MIF" "PPP1R3C"
## [103] "DPYSL4" "KDELR3" "DTNA" "ADORA2B" "HS3ST1" "CAVIN1"
## [109] "NR3C1" "KLF6" "GPC4" "CCN1" "TNFAIP3" "CA12"
## [115] "HEXA" "BGN" "PPP1R15A" "PGM2" "PIM1" "PRDX5"
## [121] "NAGK" "CDKN1B" "BRS3" "TKTL1" "MT1E" "ATP7A"
## [127] "MT2A" "SDC3" "TIPARP" "PKP1" "ANXA2" "PGAM2"
## [133] "DDIT3" "PRKCA" "SLC37A4" "CXCR4" "EFNA3" "CP"
## [139] "KLF7" "CCN2" "CHST3" "TPD52" "LXN" "B4GALNT2"
## [145] "PPARGC1A" "BCL2" "GCNT2" "HAS1" "KLHL24" "SCARB1"
## [151] "SLC25A1" "SDC2" "CASP6" "VHL" "FOXO3" "PDGFB"
## [157] "B3GALT6" "SLC2A5" "SRPX" "EFNA1" "GLRX" "ACKR3"
## [163] "PAM" "TGFBI" "DCN" "SIAH2" "PLAC8" "FBP1"
## [169] "TPST2" "PHKG1" "MYH9" "CDKN1C" "GRHPR" "PCK1"
## [175] "INHA" "HSPA5" "NDST2" "NEDD4L" "TPBG" "XPNPEP1"
## [181] "IL6" "SLC6A6" "MAP3K1" "LDHC" "AKAP12" "TES"
## [187] "KIF5A" "LALBA" "COL5A1" "GPC1" "HDLBP" "ILVBL"
## [193] "NCAN" "TGM2" "ETS1" "HOXB9" "SELENBP1" "FOSL2"
## [199] "SULT2B1" "TGFB3"
##
## $HALLMARK_CHOLESTEROL_HOMEOSTASIS
## [1] "FDPS" "CYP51A1" "IDI1" "FDFT1" "DHCR7" "SQLE"
## [7] "HMGCS1" "NSDHL" "LSS" "MVD" "LDLR" "TM7SF2"
## [13] "ALDOC" "EBP" "SCD" "PMVK" "MVK" "LPL"
## [19] "SC5D" "FADS2" "HMGCR" "HSD17B7" "ANXA13" "SREBF2"
## [25] "PCYT2" "ACSS2" "ATF3" "ADH4" "ETHE1" "ECH1"
## [31] "CBS" "GUSB" "FASN" "LGALS3" "ATF5" "ANXA5"
## [37] "TP53INP1" "CHKA" "GSTM2" "ACAT2" "AVPR1A" "PLSCR1"
## [43] "CLU" "ERRFI1" "TRIB3" "CXCL16" "TNFRSF12A" "ACTG1"
## [49] "JAG1" "LGMN" "FBXO6" "GPX8" "PNRC1" "ANTXR2"
## [55] "MAL2" "CD9" "PPARG" "GLDC" "STX5" "STARD4"
## [61] "CTNNB1" "TMEM97" "NIBAN1" "PDK3" "PLAUR" "SEMA3B"
## [67] "GNAI1" "ABCA2" "ATXN2" "NFIL3" "ALCAM" "FABP5"
## [73] "S100A11" "CPEB2"Human to mouse gene sets
To make use of human gene sets in mouse we can either
- Use an alternative mouse specific set.
- Translate relevant set to mouse ortholog names.
gskb
The gskb package holds many pathways and gene sets for mouse genome equivalent to MSigDB.
First we can load the package.
gskb datasets
The gskb package contains 7 collections of genes.
- mm_GO - gene sets from Gene Ontology for mouse (Mus musculus).
- mm_location - Gene sets based on chromosomal location.
- mm_metabolic - metabolic pathways.
- mm_miRNA - Target genes of microRNAs, predicted or experimentally verified.
- mm_pathway - Curated pathways.
- mm_TF - Transcription factor target genes.
- mm_other - Everything else.
Accessing gskb data
We access gskb datasets by using the data() function to load into memory the gene set collection of interest.
## [1] "MIRNA_MM_BETEL_MMU-LET-7A" "MIRNA_MM_BETEL_MMU-LET-7B"## $`MIRNA_MM_BETEL_MMU-LET-7A`
## [1] "MIRNA_MM_BETEL_MMU-LET-7A"
## [2] "BETEL_MMU-LET-7A; Good mirSVR score Conserved; The microRNA.org resource: targets and expression."
## [3] "NSUN4"
## [4] "DCX"
## [5] "KCNK6"
## [6] "PBX1"
## [7] "PHF8"
## [8] "RACGAP1"
## [9] "EFHD2"
## [10] "DCBLD2"
## [11] "CCDC88A"
## [12] "CEP68"
## [13] "SLITRK4"
## [14] "NAA40"
## [15] "DSCAML1"
## [16] "ESYT2"
## [17] "DNAJC21"
## [18] "CDC27"
## [19] "CHRAC1"
## [20] "MYL6"
## [21] "PRLR"
## [22] "GUF1"
## [23] "LCK"
## [24] "GSDMC"
## [25] "PTGER1"
## [26] "CADM1"
## [27] "DGCR2"
## [28] "CREM"
## [29] "PPHLN1"
## [30] "VWA1"
## [31] "IPMK"
## [32] "PTPRO"
## [33] "MPZL1"
## [34] "CREB1"
## [35] "RAVER2"
## [36] "MED24"
## [37] "TM9SF3"
## [38] "BTLA"
## [39] "TMEM72"
## [40] "TCEANC"
## [41] "SLAMF7"
## [42] "MTM1"
## [43] "ASB8"
## [44] "USP4"
## [45] "LRRFIP1"
## [46] "E330016L19RIK"
## [47] "GJC2"
## [48] "GALNT7"
## [49] "PDGFC"
## [50] "GPD2"
## [51] "EDDM3B"
## [52] "KLHL4"
## [53] "C2CD2L"
## [54] "MKS1"
## [55] "SBNO1"
## [56] "RTN3"
## [57] "EIF4E1B"
## [58] "ZNFX1"
## [59] "TMEM164"
## [60] "PADI3"
## [61] "PLB1"
## [62] "SEMA5A"
## [63] "DNMT3A"
## [64] "AP1G1"
## [65] "APH1B"
## [66] "CSPRS"
## [67] "PISD-PS3"
## [68] "2310003H01RIK"
## [69] "FBXO21"
## [70] "EYA3"
## [71] "2810011L19RIK"
## [72] "MSRA"
## [73] "SPINK5"
## [74] "PARVA"
## [75] "CHAC1"
## [76] "P4HA2"
## [77] "LRTM2"
## [78] "ELOVL7"
## [79] "ZFP568"
## [80] "AI504432"
## [81] "AGK"
## [82] "SLCO2A1"
## [83] "SH3PXD2A"
## [84] "MYBL2"
## [85] "ANKRD10"
## [86] "1700052N19RIK"
## [87] "LIN28B"
## [88] "RNF24"
## [89] "ESRRB"
## [90] "PIGS"
## [91] "TM6SF2"
## [92] "SNAP91"
## [93] "VAT1"
## [94] "4930480K23RIK"
## [95] "PQLC1"
## [96] "ZFP473"
## [97] "EHMT1"
## [98] "4632428N05RIK"
## [99] "1700012B07RIK"
## [100] "FKBP1A"
## [101] "SARNP"
## [102] "ERCC6"
## [103] "PATZ1"
## [104] "NCOR1"
## [105] "LBP"
## [106] "STON2"
## [107] "GNS"
## [108] "DHX57"
## [109] "5031439G07RIK"
## [110] "CLVS1"
## [111] "HECW1"
## [112] "ZFP12"
## [113] "GEMIN5"
## [114] "FKRP"
## [115] "RABGEF1"
## [116] "UIMC1"
## [117] "CPEB3"
## [118] "VILL"
## [119] "RRAGD"
## [120] "GNPDA1"
## [121] "DNLZ"
## [122] "COPS8"
## [123] "VGLL3"
## [124] "CWF19L2"
## [125] "CD200R1"
## [126] "OCRL"
## [127] "SLC16A6"
## [128] "GRIN1"
## [129] "COL23A1"
## [130] "CEP120"
## [131] "DZIP1"
## [132] "4930453N24RIK"
## [133] "B930041F14RIK"
## [134] "JUND"
## [135] "GP5"
## [136] "B230378P21RIK"
## [137] "YLPM1"
## [138] "STXBP5"
## [139] "LOXL3"
## [140] "ITGA1"
## [141] "ZSCAN10"
## [142] "TSPAN18"
## [143] "CECR5"
## [144] "SEC24C"
## [145] "NOS1AP"
## [146] "9330162012RIK"
## [147] "GLRX2"
## [148] "DYNC1I2"
## [149] "D130017N08RIK"
## [150] "TTC9C"
## [151] "GM5922"
## [152] "AEN"
## [153] "PDCD1"
## [154] "ICMT"
## [155] "SLC23A2"
## [156] "EXOG"
## [157] "DDX19B"
## [158] "SPTY2D1"
## [159] "BC017643"
## [160] "LRRC41"
## [161] "LRRN3"
## [162] "AFAP1L2"
## [163] "ZFP446"
## [164] "ISCA2"
## [165] "FUCA2"
## [166] "SMPD1"
## [167] "ARMC10"
## [168] "RCN1"
## [169] "ANKRD6"
## [170] "ZFP444"
## [171] "CYB561D1"
## [172] "ZFP207"
## [173] "GPRASP1"
## [174] "SERTAD2"
## [175] "PKNOX1"
## [176] "FNDC3A"
## [177] "GRIA3"
## [178] "TTC19"
## [179] "TRIM11"
## [180] "DNMT3B"
## [181] "WIPI1"
## [182] "GLO1"
## [183] "DLD"
## [184] "ZFP282"
## [185] "ATP2B2"
## [186] "CASP7"
## [187] "RAB5B"
## [188] "SH2B1"
## [189] "TAS1R3"
## [190] "DLGAP1"
## [191] "ZBTB16"
## [192] "TSPAN32"
## [193] "PUS1"
## [194] "TNRC6A"
## [195] "ACPP"
## [196] "IDO2"
## [197] "NPTXR"
## [198] "AP1B1"
## [199] "PRKRIP1"
## [200] "TMPO"
## [201] "EDA"
## [202] "TRPM6"
## [203] "NIPAL3"
## [204] "FPGS"
## [205] "VPS18"
## [206] "TRIM33"
## [207] "WDHD1"
## [208] "CEP55"
## [209] "GMIP"
## [210] "PPP1R16B"
## [211] "GSDMC3"
## [212] "MAPKBP1"
## [213] "LDB3"
## [214] "GM2897"
## [215] "NDOR1"
## [216] "C030039L03RIK"
## [217] "DIP2A"
## [218] "BCL7A"
## [219] "GM5468"
## [220] "6030443J06RIK"
## [221] "D930016D06RIK"
## [222] "GABPB2"
## [223] "ARHGEF6"
## [224] "RALGDS"
## [225] "ZFP92"
## [226] "MED1"
## [227] "A330050B17RIK"
## [228] "CD34"
## [229] "GRIK5"
## [230] "MELA"
## [231] "YBX2"
## [232] "PNPLA1"
## [233] "SLC12A6"
## [234] "TRIM7"
## [235] "FAM135A"
## [236] "BCHE"
## [237] "NTF5"
## [238] "WWP1"
## [239] "NEU4"
## [240] "ELMO1"
## [241] "DMTF1"
## [242] "CDK12"
## [243] "TULP4"
## [244] "OIT3"
## [245] "E130218I03RIK"
## [246] "GUCY1A2"
## [247] "1300002E11RIK"
## [248] "POGK"
## [249] "TEX21"
## [250] "USP29"
## [251] "4833424O15RIK"
## [252] "TTBK2"
## [253] "POLQ"
## [254] "CDC123"
## [255] "4930417H01RIK"
## [256] "NCOA7"
## [257] "STAT3"
## [258] "MLLT1"
## [259] "4933411K20RIK"
## [260] "ELK1"
## [261] "HORMAD1"
## [262] "ABCB9"
## [263] "KLHL23"
## [264] "SENP7"
## [265] "SULF1"
## [266] "TREM1"
## [267] "MTSS1"
## [268] "AHCYL2"
## [269] "TRIM39"
## [270] "HNRNPD"
## [271] "SLC34A1"
## [272] "MAPK8IP3"
## [273] "GJB5"
## [274] "RREB1"
## [275] "ENTPD5"
## [276] "SLC6A8"
## [277] "CCDC114"
## [278] "SLC22A23"
## [279] "GM9"
## [280] "SHISA5"
## [281] "RALB"
## [282] "L3MBTL4"
## [283] "FNDC3B"
## [284] "FGD4"
## [285] "LIMK2"
## [286] "PPP1R3B"
## [287] "DOK3"
## [288] "MBD1"
## [289] "AFG3L1"
## [290] "RARG"
## [291] "SYNM"
## [292] "TRHDE"
## [293] "ASB7"
## [294] "CRYBG3"
## [295] "STARD9"
## [296] "VPS37C"
## [297] "MAN1A2"
## [298] "SCARA3"
## [299] "EPM2AIP1"
## [300] "SKP2"
## [301] "DIP2C"
## [302] "AHR"
## [303] "KLHL30"
## [304] "NAA10"
## [305] "GABPA"
## [306] "TNKS2"
## [307] "NUDT13"
## [308] "2010109I03RIK"
## [309] "RAMP1"
## [310] "XKR4"
## [311] "CLEC16A"
## [312] "CPN2"
## [313] "SRR"
## [314] "AGTR1B"
## [315] "TLE4"
## [316] "ZFP655"
## [317] "MIRG"
## [318] "ANKRD16"
## [319] "RDH13"
## [320] "DPY19L2"
## [321] "AKT1S1"
## [322] "CAP1"
## [323] "A630009H07RIK"
## [324] "KIF16B"
## [325] "CHST10"
## [326] "IGF1"
## [327] "ADAMTS9"
## [328] "KIF1B"
## [329] "NSMCE2"
## [330] "1700006A11RIK"
## [331] "HES2"
## [332] "KIF7"
## [333] "IL15"
## [334] "FAM102B"
## [335] "SOD2"
## [336] "ZFP763"
## [337] "TFB2M"
## [338] "USP47"
## [339] "ZFP644"
## [340] "TMEM163"
## [341] "PTRH2"
## [342] "CTSB"
## [343] "TTPAL"
## [344] "MIR155"
## [345] "ADRA1B"
## [346] "CDKN2AIPNL"
## [347] "NEDD8"
## [348] "GAD1"
## [349] "SFPQ"
## [350] "DNAJC27"
## [351] "JMJD4"
## [352] "NEIL3"
## [353] "UBN2"
## [354] "ABCC9"
## [355] "KLHDC8A"
## [356] "MCTP1"
## [357] "KLRK1"
## [358] "COL9A3"
## [359] "ARMC9"
## [360] "NCS1"
## [361] "SERPINA3I"
## [362] "HARS2"
## [363] "A830018L16RIK"
## [364] "OXNAD1"
## [365] "POM121"
## [366] "SV2A"
## [367] "TRIM16"
## [368] "PTPN14"
## [369] "TRP63"
## [370] "NT5M"
## [371] "AMOT"
## [372] "NFATC1"
## [373] "KCNC3"
## [374] "PHLDB1"
## [375] "RHOT1"
## [376] "MYT1"
## [377] "AW549877"
## [378] "CLN3"
## [379] "INTS2"
## [380] "ZFP422"
## [381] "CBX5"
## [382] "BAHCC1"
## [383] "GSDMC4"
## [384] "ARID3A"
## [385] "CAR7"
## [386] "TAF1D"
## [387] "CTDSP2"
## [388] "CACNA1D"
## [389] "SLAMF6"
## [390] "IQSEC3"
## [391] "RASGEF1B"
## [392] "TMPRSS2"
## [393] "MAGI2"
## [394] "KIFC2"
## [395] "ARHGEF5"
## [396] "STX17"
## [397] "SLC10A7"
## [398] "MEST"
## [399] "EN1"
## [400] "6330416G13RIK"
## [401] "SMAD5"
## [402] "TXN2"
## [403] "PDGFRL"
## [404] "F730016J06RIK"
## [405] "PGM2L1"
## [406] "SLC25A28"
## [407] "TBKBP1"
## [408] "WDR77"
## [409] "MCTS2"
## [410] "1700030J22RIK"
## [411] "FAM78B"
## [412] "TMEM231"
## [413] "OGFOD1"
## [414] "STK36"
## [415] "CDYL"
## [416] "TMEM106C"
## [417] "UBE2O"
## [418] "FKBP5"
## [419] "NXT2"
## [420] "SART1"
## [421] "PLXNA2"
## [422] "HDAC6"
## [423] "SFT2D2"
## [424] "SSR1"
## [425] "STAT5B"
## [426] "SLA"
## [427] "RHBDD2"
## [428] "GYK"
## [429] "SHC4"
## [430] "TM6SF1"
## [431] "HECTD2"
## [432] "NFYA"
## [433] "SPTLC2"
## [434] "TGFBR1"
## [435] "MCTP2"
## [436] "COPS7A"
## [437] "NFAM1"
## [438] "CPSF4"
## [439] "DDX20"
## [440] "B3GNT7"
## [441] "MTPN"
## [442] "MED7"
## [443] "CD2AP"
## [444] "SH2D2A"
## [445] "GPAA1"
## [446] "ARL5A"
## [447] "CDC34"
## [448] "SYTL4"
## [449] "4930579C12RIK"
## [450] "SLC43A2"
## [451] "MMD"
## [452] "PRKRIR"
## [453] "PA2G4"
## [454] "LAPTM5"
## [455] "2700081O15RIK"
## [456] "E2F6"
## [457] "TIMP4"
## [458] "KLHL15"
## [459] "SHISA9"
## [460] "PDE12"
## [461] "ARFRP1"
## [462] "SPOCK1"
## [463] "H2AFX"
## [464] "NPAS3"
## [465] "1600012H06RIK"
## [466] "GOLGA7"
## [467] "KCNC2"
## [468] "KIF14"
## [469] "PYGO2"
## [470] "P2RX4"
## [471] "HPS3"
## [472] "CYBA"
## [473] "UBE2J2"
## [474] "KCNS2"
## [475] "9530059O14RIK"
## [476] "HDX"
## [477] "NRF1"
## [478] "NEK9"
## [479] "EIF2S2"
## [480] "SECTM1B"
## [481] "SLC24A6"
## [482] "SNX27"
## [483] "IMP4"
## [484] "DBC1"
## [485] "COL27A1"
## [486] "SHANK2"
## [487] "TRP53BP1"
## [488] "TMEM143"
## [489] "ANO2"
## [490] "FN3K"
## [491] "UBE2E3"
## [492] "MPP2"
## [493] "GTPBP2"
## [494] "MBNL3"
## [495] "GM15246"
## [496] "FBXW11"
## [497] "HIATL1"
## [498] "E330032C10RIK"
## [499] "MBTPS2"
## [500] "TIMM22"
## [501] "NPSR1"
## [502] "B430306N03RIK"
## [503] "CD93"
## [504] "ZFP36L1"
## [505] "VASH2"
## [506] "2610301B20RIK"
## [507] "SCYL3"
## [508] "LRRC58"
## [509] "HMBOX1"
## [510] "SYS1"
## [511] "TNFRSF22"
## [512] "KCNB2"
## [513] "CABP2"
## [514] "KLHL32"
## [515] "MYADM"
## [516] "B230206H07RIK"
## [517] "SYT2"
## [518] "3110002H16RIK"
## [519] "ZFP248"
## [520] "SLC25A3"
## [521] "SMOC2"
## [522] "ARHGAP8"
## [523] "SLC7A14"
## [524] "MTERFD3"
## [525] "TTC3"
## [526] "IKBKG"
## [527] "JPH4"
## [528] "MAGT1"
## [529] "PRR18"
## [530] "HNRPDL"
## [531] "MTMR6"
## [532] "ENY2"
## [533] "EPB4.1L1"
## [534] "PDZD3"
## [535] "SENP2"
## [536] "RFFL"
## [537] "FAF2"
## [538] "RNF13"
## [539] "MICAL3"
## [540] "PANX2"
## [541] "NLRP4C"
## [542] "GSPT2"
## [543] "ANKRD54"
## [544] "TTLL9"
## [545] "LMBRD1"
## [546] "DBPHT2"
## [547] "CLN8"
## [548] "ZDHHC21"
## [549] "FAM60A"
## [550] "PFN2"
## [551] "AGBL2"
## [552] "1700112E06RIK"
## [553] "ZDHHC24"
## [554] "TEF"
## [555] "8030462N17RIK"
## [556] "PPP2R1A"
## [557] "LPHN3"
## [558] "LIN7C"
## [559] "DSC3"
## [560] "NDST1"
## [561] "1700047M11RIK"
## [562] "GRID2IP"
## [563] "CGGBP1"
## [564] "WARS"
## [565] "TXNL4B"
## [566] "UBE2H"
## [567] "FRS2"
## [568] "USP45"
## [569] "ACSM5"
## [570] "RUNDC1"
## [571] "TC2N"
## [572] "CDADC1"
## [573] "CCNH"
## [574] "RPGRIP1"
## [575] "AU015836"
## [576] "CXCL12"
## [577] "ZFP111"
## [578] "IPCEF1"
## [579] "ANXA8"
## [580] "ST3GAL1"
## [581] "GNA15"
## [582] "TIFAB"
## [583] "IGF1R"
## [584] "MIER2"
## [585] "GNAL"
## [586] "VTI1A"
## [587] "1700026D11RIK"
## [588] "NF2"
## [589] "TMEM229B"
## [590] "HGF"
## [591] "DHRS13"
## [592] "ARMC8"
## [593] "GRAMD3"
## [594] "DNASE2A"
## [595] "TECPR2"
## [596] "SYN3"
## [597] "EBF4"
## [598] "B3GAT1"
## [599] "COL10A1"
## [600] "PRRT2"
## [601] "TMEM71"
## [602] "KLF17"
## [603] "1500026H17RIK"
## [604] "RBM33"
## [605] "CACNB2"
## [606] "MYL9"
## [607] "SOX2OT"
## [608] "ISY1"
## [609] "AGAP1"
## [610] "RHBDD1"
## [611] "USP7"
## [612] "AOC3"
## [613] "MCPT2"
## [614] "SKIL"
## [615] "SRRM4"
## [616] "C920008G01RIK"
## [617] "AA987161"
## [618] "MOBP"
## [619] "CWC25"
## [620] "RUNX3"
## [621] "ZFP300"
## [622] "IKZF2"
## [623] "SLC4A7"
## [624] "PTBP2"
## [625] "PDZD7"
## [626] "MLLT10"
## [627] "4933437N03RIK"
## [628] "ZBTB37"
## [629] "CTTNBP2"
## [630] "SMAP1"
## [631] "2810429I04RIK"
## [632] "PSD2"
## [633] "AP2B1"
## [634] "UBE2K"
## [635] "NTRK2"
## [636] "USP16"
## [637] "KRT6A"
## [638] "2900079G21RIK"
## [639] "TMOD2"
## [640] "LBH"
## [641] "ADAMTS14"
## [642] "LPAR1"
## [643] "PIM1"
## [644] "OSBP2"
## [645] "NIN"
## [646] "RHOBTB1"
## [647] "EPSTI1"
## [648] "PDZRN3"
## [649] "1810014B01RIK"
## [650] "STK35"
## [651] "AI464131"
## [652] "A1CF"
## [653] "KLHDC3"
## [654] "EIF4EBP2"
## [655] "WDR92"
## [656] "SLC2A6"
## [657] "CSNK1G1"
## [658] "ZFP512"
## [659] "FRMD5"
## [660] "AIG1"
## [661] "NSD1"
## [662] "AI854517"
## [663] "MEF2C"
## [664] "ACTR2"
## [665] "COL2A1"
## [666] "TRIM66"
## [667] "AP3B2"
## [668] "ANXA3"
## [669] "NOSIP"
## [670] "PGLS"
## [671] "PDGFRB"
## [672] "SFMBT2"
## [673] "GM9054"
## [674] "LPP"
## [675] "ZFP668"
## [676] "HSPBAP1"
## [677] "NAA30"
## [678] "D030028A08RIK"
## [679] "SRGAP2"
## [680] "2500002B13RIK"
## [681] "KIRREL3"
## [682] "WDR37"
## [683] "TMEM91"
## [684] "MLST8"
## [685] "MGLL"
## [686] "DFFA"
## [687] "PCYT1B"
## [688] "IL21"
## [689] "3110052M02RIK"
## [690] "RBM14"
## [691] "MAPK10"
## [692] "CBX7"
## [693] "4930555G01RIK"
## [694] "PSG17"
## [695] "FUT9"
## [696] "YME1L1"
## [697] "BC049352"
## [698] "ZBTB7B"
## [699] "METTL4"
## [700] "ATE1"
## [701] "ANO5"
## [702] "FBXW4"
## [703] "B4GALT6"
## [704] "ZFP653"
## [705] "ARRDC3"
## [706] "PELI1"
## [707] "VPS13D"
## [708] "A830012C17RIK"
## [709] "ARNT2"
## [710] "TPRN"
## [711] "HOXD3"
## [712] "4833417C18RIK"
## [713] "GK5"
## [714] "SNHG1"
## [715] "SERPINB8"
## [716] "EME2"
## [717] "DEGS1"
## [718] "4930422G04RIK"
## [719] "SPIN1"
## [720] "ESRRG"
## [721] "ITCH"
## [722] "RANBP10"
## [723] "TRAM1L1"
## [724] "TSC22D2"
## [725] "RB1"
## [726] "SDC3"
## [727] "ACVR1B"
## [728] "BATF"
## [729] "BC046251"
## [730] "PAQR3"
## [731] "MAST4"
## [732] "ELL2"
## [733] "CCDC116"
## [734] "MGAT1"
## [735] "TMEM8B"
## [736] "B530045E10RIK"
## [737] "DDX58"
## [738] "4930533N22RIK"
## [739] "EZH1"
## [740] "PIN1"
## [741] "SYNJ1"
## [742] "PXK"
## [743] "FBXL22"
## [744] "NR1D2"
## [745] "RHEB"
## [746] "PARD3B"
## [747] "RNF167"
## [748] "RBM11"
## [749] "GPR174"
## [750] "KIF3A"
## [751] "ARMC2"
## [752] "FKBP6"
## [753] "TSPAN5"
## [754] "ZFP710"
## [755] "SPIN4"
## [756] "CTTN"
## [757] "SLC2A8"
## [758] "ARHGEF12"
## [759] "PPP2R1B"
## [760] "C030017K20RIK"
## [761] "NRP2"
## [762] "RAB11FIP5"
## [763] "CCBL2"
## [764] "DENND5B"
## [765] "LCOR"
## [766] "SLC6A1"
## [767] "4930434J06RIK"
## [768] "AIRN"
## [769] "SSH2"
## [770] "TFAM"
## [771] "DUSP16"
## [772] "NOL7"
## [773] "SCN3B"
## [774] "GATM"
## [775] "D430042O09RIK"
## [776] "DOK4"
## [777] "CCR9"
## [778] "SUMF2"
## [779] "NRBP2"
## [780] "SH3KBP1"
## [781] "HIST2H2BE"
## [782] "UBAP1"
## [783] "LILRB4"
## [784] "PIKFYVE"
## [785] "GM4776"
## [786] "SGSM2"
## [787] "PROM2"
## [788] "ABHD12B"
## [789] "PPP1R1C"
## [790] "TSPAN7"
## [791] "TCF25"
## [792] "HBA-A2"
## [793] "FADS1"
## [794] "CHST1"
## [795] "AIDA"
## [796] "FOXP2"
## [797] "NAIP6"
## [798] "HMGN3"
## [799] "CLEC5A"
## [800] "BC048943"
## [801] "UFM1"
## [802] "KCNV1"
## [803] "STK16"
## [804] "NOD2"
## [805] "SUPT7L"
## [806] "TRMT11"
## [807] "CAP2"
## [808] "SYT5"
## [809] "TPRGL"
## [810] "SLC37A4"
## [811] "LPL"
## [812] "UBOX5"
## [813] "HAND1"
## [814] "CHD5"
## [815] "SYT11"
## [816] "CEP164"
## [817] "NPR3"
## [818] "ACN9"
## [819] "CCDC127"
## [820] "OPHN1"
## [821] "MAN2A1"
## [822] "SCARB1"
## [823] "ZFP707"
## [824] "PSMB5"
## [825] "NKIRAS2"
## [826] "HAP1"
## [827] "PDE1C"
## [828] "VWCE"
## [829] "DSC1"
## [830] "MEA1"
## [831] "ITSN2"
## [832] "PPP1R3C"
## [833] "BNC2"
## [834] "ABCC10"
## [835] "LYZL4"
## [836] "INTS9"
## [837] "DKK3"
## [838] "CORO2A"
## [839] "RHBDL3"
## [840] "MYRIP"
## [841] "ZC3H11A"
## [842] "PRMT6"
## [843] "SLC7A8"
## [844] "GM6787"
## [845] "GM410"
## [846] "EIF3I"
## [847] "EBAG9"
## [848] "TMEM62"
## [849] "GTPBP1"
## [850] "CCDC53"
## [851] "B230110G15RIK"
## [852] "TPPP"
## [853] "A930024E05RIK"
## [854] "KLHL26"
## [855] "MNT"
## [856] "PTPRH"
## [857] "SNPH"
## [858] "LTB"
## [859] "TRP53RK"
## [860] "SKINT3"
## [861] "ANKS1B"
## [862] "MAN1A"
## [863] "ZFP9"
## [864] "ALX3"
## [865] "ZFP263"
## [866] "3010003L21RIK"
## [867] "ACOX1"
## [868] "CASP9"
## [869] "IARS"
## [870] "CHSY3"
## [871] "FGF1"
## [872] "FAM196B"
## [873] "SBK1"
## [874] "MALT1"
## [875] "SMYD5"
## [876] "LRRTM1"
## [877] "RAPGEF6"
## [878] "GM15623"
## [879] "KLHL20"
## [880] "MAPRE1"
## [881] "ZFP329"
## [882] "STARD3NL"
## [883] "HTR2C"
## [884] "CD160"
## [885] "GNAI3"
## [886] "BCL2L13"
## [887] "NT5DC1"
## [888] "KDM4D"
## [889] "NCTC1"
## [890] "ARHGEF16"
## [891] "ZDHHC3"
## [892] "ADAM23"
## [893] "MAVS"
## [894] "PDE4B"
## [895] "STIM1"
## [896] "NVL"
## [897] "COPS7B"
## [898] "IGF2AS"
## [899] "EDNRA"
## [900] "ZC3H7B"
## [901] "STAB2"
## [902] "SMCR7"
## [903] "NCALD"
## [904] "CDR2L"
## [905] "PNPT1"
## [906] "HIC2"
## [907] "ARRDC4"
## [908] "WDR82"
## [909] "BAIAP2"
## [910] "ST13"
## [911] "CNTN2"
## [912] "SLC6A17"
## [913] "CWC22"
## [914] "FAM133B"
## [915] "CELA1"
## [916] "TRIM2"
## [917] "CAMK2D"
## [918] "UNC5C"
## [919] "NUDT4"
## [920] "LCORL"
## [921] "SLC35A4"
## [922] "STARD13"
## [923] "BCAP29"
## [924] "4930403D09RIK"
## [925] "IL1F5"
## [926] "MYOZ2"
## [927] "ATXN7L3"
## [928] "HSD3B3"
## [929] "CCND1"
## [930] "WDTC1"
## [931] "TAF9B"
## [932] "FAM132B"
## [933] "TAC4"
## [934] "RPRD2"
## [935] "SPHKAP"
## [936] "ZBTB33"
## [937] "AKT1"
## [938] "ARID3B"
## [939] "GPR31C"
## [940] "NEUROD2"
## [941] "OGFR"
## [942] "C230072F16RIK"
## [943] "EEF1D"
## [944] "ANKRD40"
## [945] "6330403A02RIK"
## [946] "MKL1"
## [947] "CEP57"
## [948] "SLC25A22"
## [949] "OSBPL6"
## [950] "MED28"
## [951] "PRKD3"
## [952] "SRPK2"
## [953] "NDST3"
## [954] "ASNSD1"
## [955] "AHI1"
## [956] "PTP4A3"
## [957] "SYNJ2BP"
## [958] "PKNOX2"
## [959] "DDO"
## [960] "ADAM11"
## [961] "SH3PXD2B"
## [962] "ADAM12"
## [963] "MCFD2"
## [964] "SUV39H1"
## [965] "CDK18"
## [966] "GRIA2"
## [967] "AHRR"
## [968] "KRTAP5-2"
## [969] "A430105I19RIK"
## [970] "RNF32"
## [971] "SNX30"
## [972] "D630045J12RIK"
## [973] "KIF9"
## [974] "4933407E24RIK"
## [975] "ABHD14B"
## [976] "HIF1AN"
## [977] "ISL1"
## [978] "SLC29A2"
## [979] "NOTCH2"
## [980] "CHRNB4"
## [981] "LRRIQ3"
## [982] "RHOH"
## [983] "ZBTB10"
## [984] "PLXNB1"
## [985] "KLHL18"
## [986] "IL6ST"
## [987] "TDRD1"
## [988] "4930428N03RIK"
## [989] "SLC18A1"
## [990] "ARNT"
## [991] "1600014C10RIK"
## [992] "GCNT3"
## [993] "ARHGEF15"
## [994] "LY86"
## [995] "THOC2"
## [996] "PYGB"
## [997] "PTPRN2"
## [998] "TARBP2"
## [999] "SFXN3"
## [1000] "TBC1D14"
## [1001] "GM16515"
## [1002] "CLCN3"
## [1003] "TTLL1"
## [1004] "RGS9BP"
## [1005] "ITFG2"
## [1006] "ESYT1"
## [1007] "CTDSPL2"
## [1008] "ATXN1L"
## [1009] "BMF"
## [1010] "ABL1"
## [1011] "SLC2A3"
## [1012] "TRCG1"
## [1013] "MPDZ"
## [1014] "TMEM139"
## [1015] "COL19A1"
## [1016] "UPK1A"
## [1017] "MYCL1"
## [1018] "AAK1"
## [1019] "LNP"
## [1020] "SPAG9"
## [1021] "2700099C18RIK"
## [1022] "RAB11FIP2"
## [1023] "OTUD7B"
## [1024] "POLR3G"
## [1025] "TLN2"
## [1026] "PGAM1"
## [1027] "TSR2"
## [1028] "FABP12"
## [1029] "IRF4"
## [1030] "RFX2"
## [1031] "UHRF2"
## [1032] "ITGA8"
## [1033] "TTPA"
## [1034] "ZFP532"
## [1035] "DOHH"
## [1036] "ART1"
## [1037] "PGS1"
## [1038] "SMCR8"
## [1039] "4933406F09RIK"
## [1040] "ZFP174"
## [1041] "VAV3"
## [1042] "SLC8A1"
## [1043] "IFT80"
## [1044] "ZEB2"
## [1045] "SPEG"
## [1046] "1110051M20RIK"
## [1047] "TGFBRAP1"
## [1048] "SEMA4B"
## [1049] "TMED10"
## [1050] "GM13547"
## [1051] "CRB1"
## [1052] "CRTAP"
## [1053] "ABI1"
## [1054] "AGBL5"
## [1055] "GAS1"
## [1056] "1700095A21RIK"
## [1057] "VRK1"
## [1058] "TMEM129"
## [1059] "MGAT4C"
## [1060] "KCTD10"
## [1061] "DENND4C"
## [1062] "CD83"
## [1063] "RAB6B"
## [1064] "MNAT1"
## [1065] "CLDN19"
## [1066] "1110008L16RIK"
## [1067] "4933427E13RIK"
## [1068] "MEIS2"
## [1069] "RNF169"
## [1070] "FMN1"
## [1071] "ARHGAP25"
## [1072] "TNRC6B"
## [1073] "TMIE"
## [1074] "HRASLS"
## [1075] "PLCD4"
## [1076] "VPS25"
## [1077] "SLC39A14"
## [1078] "ZKSCAN2"
## [1079] "GJC3"
## [1080] "DGKI"
## [1081] "MAPT"
## [1082] "PRPF18"
## [1083] "ZFP618"
## [1084] "IL23R"
## [1085] "AKNAD1"
## [1086] "DST"
## [1087] "UTP23"
## [1088] "CD47"
## [1089] "GIT2"
## [1090] "PLEKHB2"
## [1091] "GM5766"
## [1092] "IGSF9"
## [1093] "CDK19"
## [1094] "SEBOX"
## [1095] "ALX4"
## [1096] "CLCF1"
## [1097] "ENOX1"
## [1098] "PTPN7"
## [1099] "DPAGT1"
## [1100] "HN1L"
## [1101] "ZFP781"
## [1102] "MLEC"
## [1103] "NRAS"
## [1104] "NCAM1"
## [1105] "PROX2"
## [1106] "THSD4"
## [1107] "IMP3"
## [1108] "ALDH6A1"
## [1109] "RNPS1"
## [1110] "BCL2L14"
## [1111] "PLOD1"
## [1112] "HOMER3"
## [1113] "FXYD5"
## [1114] "ZBTB39"
## [1115] "PIK3R4"
## [1116] "EPHB3"
## [1117] "TOM1"
## [1118] "TMEM191C"
## [1119] "DDIT4L"
## [1120] "RBMS3"
## [1121] "UNC13B"
## [1122] "DCAF8"
## [1123] "ZFP275"
## [1124] "DDX5"
## [1125] "GRM6"
## [1126] "ZFP777"
## [1127] "SLC16A1"
## [1128] "NUP50"
## [1129] "OLFR701"
## [1130] "ACER3"
## [1131] "AI846148"
## [1132] "E430024P14RIK"
## [1133] "LARP4B"
## [1134] "DOK6"
## [1135] "SF3B3"
## [1136] "LIG3"
## [1137] "TTC14"
## [1138] "STIL"
## [1139] "TRIB1"
## [1140] "OTUD4"
## [1141] "MED13"
## [1142] "TBL2"
## [1143] "ANGEL2"
## [1144] "POFUT1"
## [1145] "HMGXB3"
## [1146] "GNL3L"
## [1147] "IFNAR1"
## [1148] "MIDN"
## [1149] "1110018G07RIK"
## [1150] "INSR"
## [1151] "CSDE1"
## [1152] "GIGYF1"
## [1153] "CELF1"
## [1154] "1700054K19RIK"
## [1155] "HMGA2"
## [1156] "CCDC155"
## [1157] "HLCS"
## [1158] "TWSG1"
## [1159] "MYD88"
## [1160] "FDX1"
## [1161] "PRKACB"
## [1162] "DAB1"
## [1163] "B4GALT4"
## [1164] "GALP"
## [1165] "TUB"
## [1166] "C1QTNF1"
## [1167] "CYP2C65"
## [1168] "SPATA7"
## [1169] "ZFYVE20"
## [1170] "LYZL6"
## [1171] "JRK"
## [1172] "NRL"
## [1173] "GCNT1"
## [1174] "PRRC1"
## [1175] "A830049A06"
## [1176] "PIGW"
## [1177] "PRKAA2"
## [1178] "FAM174A"
## [1179] "D430020J02RIK"
## [1180] "TTC21B"
## [1181] "CAB39L"
## [1182] "VWA3B"
## [1183] "GOLPH3L"
## [1184] "STX6"
## [1185] "FAHD1"
## [1186] "PLAT"
## [1187] "RASSF3"
## [1188] "ZFP783"
## [1189] "DCAF7"
## [1190] "SLC45A3"
## [1191] "PPP1R3A"
## [1192] "LIMK1"
## [1193] "FGFBP1"
## [1194] "JAGN1"
## [1195] "CD5"
## [1196] "ASPA"
## [1197] "COL16A1"
## [1198] "GLYCTK"
## [1199] "CDH11"
## [1200] "CFLAR"
## [1201] "GM14296"
## [1202] "EPB4.1L5"
## [1203] "PLA2G10"
## [1204] "SLCO3A1"
## [1205] "KRBA1"
## [1206] "NAV2"
## [1207] "UTP18"
## [1208] "TIA1"
## [1209] "APTX"
## [1210] "MAN2A2"
## [1211] "STT3B"
## [1212] "EPS8L3"
## [1213] "NR1I3"
## [1214] "COL9A1"
## [1215] "KCNA4"
## [1216] "GRB10"
## [1217] "RABEPK"
## [1218] "A330050F15RIK"
## [1219] "ANK3"
## [1220] "HVCN1"
## [1221] "UBXN2A"
## [1222] "ZFP146"
## [1223] "HN1"
## [1224] "CSF2RB2"
## [1225] "DTWD2"
## [1226] "4933412E12RIK"
## [1227] "ABAT"
## [1228] "RNF38"
## [1229] "GM807"
## [1230] "GM5524"
## [1231] "PLEKHA2"
## [1232] "SSPN"
## [1233] "BCL2L11"
## [1234] "RPL22"
## [1235] "DNM3"
## [1236] "NUP133"
## [1237] "FAM26E"
## [1238] "ZFP322A"
## [1239] "EFR3A"
## [1240] "ADIPOR2"
## [1241] "RGR"
## [1242] "BRSK2"
## [1243] "MYO3A"
## [1244] "ATP11A"
## [1245] "ARHGAP6"
## [1246] "RNF165"
## [1247] "RRP7A"
## [1248] "RNF216"
## [1249] "FAM149B"
## [1250] "PEX26"
## [1251] "GLCE"
## [1252] "A230108P19RIK"
## [1253] "MAP2K7"
## [1254] "SGPP2"
## [1255] "TOR1AIP2"
## [1256] "CGN"
## [1257] "SGK3"
## [1258] "CNTLN"
## [1259] "SLC25A35"
## [1260] "TMED8"
## [1261] "GPR35"
## [1262] "THOC1"
## [1263] "RSAD2"
## [1264] "ATAD2"
## [1265] "EDEM1"
## [1266] "CELF5"
## [1267] "PITPNC1"
## [1268] "SETD5"
## [1269] "DCP1A"
## [1270] "ARSG"
## [1271] "SCOC"
## [1272] "RFX1"
## [1273] "NUMBL"
## [1274] "KBTBD8"
## [1275] "B4GALNT2"
## [1276] "NF1"
## [1277] "CCDC115"
## [1278] "RASSF7"
## [1279] "CNOT3"
## [1280] "CHRNA3"
## [1281] "4930513N10RIK"
## [1282] "NIPAL1"
## [1283] "GINS1"
## [1284] "HCFC1"
## [1285] "COMMD9"
## [1286] "MPZ"
## [1287] "HSPH1"
## [1288] "LMLN"
## [1289] "ZER1"
## [1290] "KCNAB1"
## [1291] "KPTN"
## [1292] "MYOM1"
## [1293] "CYB561"
## [1294] "4930478P22RIK"
## [1295] "TAT"
## [1296] "PGPEP1"
## [1297] "PER3"
## [1298] "ZCCHC11"
## [1299] "ZMYM5"
## [1300] "1700072I22RIK"
## [1301] "CD200"
## [1302] "ZKSCAN14"
## [1303] "RNF222"
## [1304] "4930435E12RIK"
## [1305] "ACAT1"
## [1306] "SLC35D1"
## [1307] "DSTYK"
## [1308] "CYYR1"
## [1309] "B130046B21RIK"
## [1310] "BLVRA"
## [1311] "RAB11FIP4"
## [1312] "CCNG1"
## [1313] "ZZZ3"
## [1314] "PRICKLE1"
## [1315] "CYP2C39"
## [1316] "RNF144A"
## [1317] "GM4858"
## [1318] "PVT1"
## [1319] "IFT122"
## [1320] "RNF170"
## [1321] "METTL8"
## [1322] "GM597"
## [1323] "ZFP563"
## [1324] "ZCCHC4"
## [1325] "RFTN2"
## [1326] "PRPF39"
## [1327] "1700037H04RIK"
## [1328] "KCNIP3"
## [1329] "PPP1R16A"
## [1330] "WDR13"
## [1331] "PPM1E"
## [1332] "STX11"
## [1333] "PDXK"
## [1334] "ASTE1"
## [1335] "GM10419"
## [1336] "CD276"
## [1337] "CDKL2"
## [1338] "RAPGEFL1"
## [1339] "TJP1"
## [1340] "GM13111"
## [1341] "LRP11"
## [1342] "4930447F24RIK"
## [1343] "PHC2"
## [1344] "EIF2AK3"
## [1345] "SF3A1"
## [1346] "TRIM45"
## [1347] "KCTD1"
## [1348] "DCBLD1"
## [1349] "CHORDC1"
## [1350] "YEATS4"
## [1351] "HERC1"
## [1352] "ERLIN2"
## [1353] "ADRA2A"
## [1354] "BC034902"
## [1355] "SEPP1"
## [1356] "TMPRSS11F"
## [1357] "2810474O19RIK"
## [1358] "COQ3"
## [1359] "CCDC34"
## [1360] "2810006K23RIK"
## [1361] "HSD11B1"
## [1362] "SAMD4B"
## [1363] "BSN"
## [1364] "PKIB"
## [1365] "RECQL"
## [1366] "G630016G05RIK"
## [1367] "ATP6V1G3"
## [1368] "EXOC6B"
## [1369] "ZFYVE26"
## [1370] "SLC8A2"
## [1371] "MMAB"
## [1372] "UBXN4"
## [1373] "METTL14"
## [1374] "HS2ST1"
## [1375] "TMX4"
## [1376] "PPFIBP2"
## [1377] "LRRC16A"
## [1378] "SLC7A13"
## [1379] "GOLPH3"
## [1380] "ARSJ"
## [1381] "GJA5"
## [1382] "ARHGAP19"
## [1383] "RILPL1"
## [1384] "TBXA2R"
## [1385] "BIRC5"
## [1386] "NCKAP1L"
## [1387] "4930451C15RIK"
## [1388] "PSKH1"
## [1389] "SLC25A45"
## [1390] "ZFP398"
## [1391] "PPP2R5C"
## [1392] "FBXW2"
## [1393] "NDUFS1"
## [1394] "SUMF1"
## [1395] "GPATCH2"
## [1396] "PALLD"
## [1397] "HRH3"
## [1398] "ADH6B"
## [1399] "GTF2IRD1"
## [1400] "GM12185"
## [1401] "EME1"
## [1402] "C430049E01RIK"
## [1403] "ATG16L1"
## [1404] "NLRP5"
## [1405] "RBM41"
## [1406] "ANGPTL2"
## [1407] "1810062O18RIK"
## [1408] "SEMA3C"
## [1409] "PCSK2"
## [1410] "CDK1"
## [1411] "KIF21B"
## [1412] "PDLIM7"
## [1413] "WBSCR22"
## [1414] "A330023F24RIK"
## [1415] "BCAT1"
## [1416] "PRPF4"
## [1417] "UMPS"
## [1418] "MYO1H"
## [1419] "GRIN2B"
## [1420] "FIBCD1"
## [1421] "PKD1"
## [1422] "MTMR4"
## [1423] "FNBP1"
## [1424] "9530077C05RIK"
## [1425] "CYB5B"
## [1426] "GM9903"
## [1427] "ERGIC1"
## [1428] "4833420G17RIK"
## [1429] "CDK5R2"
## [1430] "GM5878"
## [1431] "ATP2A3"
## [1432] "SEMA7A"
## [1433] "SCNN1G"
## [1434] "SIK1"
## [1435] "MICAL1"
## [1436] "RGS12"
## [1437] "GM4798"
## [1438] "SCFD1"
## [1439] "ATF7IP2"
## [1440] "PDE10A"
## [1441] "ANKFY1"
## [1442] "SH3D19"
## [1443] "SYN2"
## [1444] "AKNA"
## [1445] "EIF4EBP1"
## [1446] "MED13L"
## [1447] "TOMM70A"
## [1448] "9530026P05RIK"
## [1449] "VWC2L"
## [1450] "RGS11"
## [1451] "NIPSNAP3A"
## [1452] "CEP110"
## [1453] "ZFP407"
## [1454] "SLC9A3R2"
## [1455] "LY6G6E"
## [1456] "AQP6"
## [1457] "D630037F22RIK"
## [1458] "GYS1"
## [1459] "CFH"
## [1460] "MTDH"
## [1461] "FAM115C"
## [1462] "GNG2"
## [1463] "ETOHD2"
## [1464] "TTC28"
## [1465] "SLC24A3"
## [1466] "IGHMBP2"
## [1467] "PLA1A"
## [1468] "PROKR1"
## [1469] "BLK"
## [1470] "KL"
## [1471] "PSD3"
## [1472] "NKX1-2"
## [1473] "DCUN1D4"
## [1474] "SEC14L1"
## [1475] "SBNO2"
## [1476] "STAMBP"
## [1477] "SPATS2L"
## [1478] "NRP1"
## [1479] "H2-OB"
## [1480] "PRR3"
## [1481] "MMP11"
## [1482] "FBXO41"
## [1483] "POMT2"
## [1484] "HMGCS1"
## [1485] "OBFC1"
## [1486] "LARP4"
## [1487] "RIMKLA"
## [1488] "SLAIN2"
## [1489] "IMPACT"
## [1490] "VPS26A"
## [1491] "WDR73"
## [1492] "TMEM57"
## [1493] "FGF5"
## [1494] "GLS"
## [1495] "ARL13B"
## [1496] "KLHDC7A"
## [1497] "SERPINA12"
## [1498] "LFNG"
## [1499] "LRRC4"
## [1500] "ANKRD34A"
## [1501] "GM5134"
## [1502] "TECPR1"
## [1503] "PLP1"
## [1504] "6330408A02RIK"
## [1505] "WASF2"
## [1506] "RPH3A"
## [1507] "PRR9"
## [1508] "TSPAN31"
## [1509] "FOXK1"
## [1510] "IL1RN"
## [1511] "NCOA2"
## [1512] "9430065F17RIK"
## [1513] "ZXDA"
## [1514] "DHRS9"
## [1515] "PRKCB"
## [1516] "N6AMT1"
## [1517] "KCNAB2"
## [1518] "FLAD1"
## [1519] "MTUS2"
## [1520] "FUNDC2"
## [1521] "ZDHHC8"
## [1522] "IPO5"
## [1523] "GGT5"
## [1524] "ATP1A3"
## [1525] "RGS16"
## [1526] "ANO6"
## [1527] "PBX3"
## [1528] "TMEM18"
## [1529] "MAP3K4"
## [1530] "RNFT2"
## [1531] "FADD"
## [1532] "LOX"
## [1533] "SLC2A4"
## [1534] "GALK2"
## [1535] "9330188P03RIK"
## [1536] "DUSP19"
## [1537] "GM14085"
## [1538] "GM10634"
## [1539] "IL4RA"
## [1540] "NEK7"
## [1541] "PAPOLA"
## [1542] "ATG4C"
## [1543] "FICD"
## [1544] "TSPAN2"
## [1545] "0610009O20RIK"
## [1546] "A930011O12RIK"
## [1547] "EIF5A2"
## [1548] "ZNF512B"
## [1549] "GRIK1"
## [1550] "CYTH4"
## [1551] "CACNB4"
## [1552] "2410080I02RIK"
## [1553] "PCDH15"
## [1554] "MSI2"
## [1555] "GRM2"
## [1556] "UBE2B"
## [1557] "KIF5C"
## [1558] "2010002M12RIK"
## [1559] "NRD1"
## [1560] "SCN5A"
## [1561] "MAPK9"
## [1562] "RBM26"
## [1563] "TDGF1"
## [1564] "LMNB2"
## [1565] "BRMS1"
## [1566] "GDNF"
## [1567] "ANAPC5"
## [1568] "ZPBP2"
## [1569] "KCNJ16"
## [1570] "TAB2"
## [1571] "ZFP709"
## [1572] "MSI1"
## [1573] "RBM7"
## [1574] "BMPR1A"
## [1575] "LMBR1"
## [1576] "B3GALT5"
## [1577] "BCL2L1"
## [1578] "KCNK16"
## [1579] "TRAPPC9"
## [1580] "TTLL7"
## [1581] "DOCK5"
## [1582] "WARS2"
## [1583] "ALDH1A3"
## [1584] "ME3"
## [1585] "XIRP1"
## [1586] "YARS2"
## [1587] "PLEKHA6"
## [1588] "NUDCD3"
## [1589] "ETL4"
## [1590] "VDR"
## [1591] "GIMAP8"
## [1592] "RASA2"
## [1593] "PARP14"
## [1594] "SSBP3"
## [1595] "SLC38A1"
## [1596] "4930407I19RIK"
## [1597] "OGDH"
## [1598] "ABR"
## [1599] "MERTK"
## [1600] "TRP53INP1"
## [1601] "PRX"
## [1602] "A430057M04RIK"
## [1603] "TYR"
## [1604] "GOLM1"
## [1605] "KIFAP3"
## [1606] "CCBE1"
## [1607] "FAM163A"
## [1608] "A930015D03RIK"
## [1609] "KDM5D"
## [1610] "EID1"
## [1611] "ARHGEF9"
## [1612] "BC037034"
## [1613] "MMP15"
## [1614] "CLDN23"
## [1615] "CDAN1"
## [1616] "DENND4A"
## [1617] "GM3002"
## [1618] "DNAJB12"
## [1619] "TANC2"
## [1620] "GTF2A1"
## [1621] "GLRX3"
## [1622] "CTLA4"
## [1623] "APAF1"
## [1624] "IGFBP5"
## [1625] "HIC1"
## [1626] "TMEM201"
## [1627] "ILKAP"
## [1628] "LRRCC1"
## [1629] "MESDC2"
## [1630] "CGNL1"
## [1631] "AUH"
## [1632] "APBA1"
## [1633] "SAA2"
## [1634] "ETNK1"
## [1635] "NNT"
## [1636] "6030458C11RIK"
## [1637] "BC039771"
## [1638] "SON"
## [1639] "HSF2BP"
## [1640] "FAM167A"
## [1641] "GRHL2"
## [1642] "BC043934"
## [1643] "ECHS1"
## [1644] "TNFSF18"
## [1645] "ILTIFB"
## [1646] "PLEKHJ1"
## [1647] "KIF18A"
## [1648] "RPS6KB1"
## [1649] "GSDMA2"
## [1650] "BSG"
## [1651] "DUSP9"
## [1652] "1700028D13RIK"
## [1653] "KCTD12B"
## [1654] "UEVLD"
## [1655] "PDPK1"
## [1656] "9330155M09RIK"
## [1657] "LAMP2"
## [1658] "TRPS1"
## [1659] "SFRS18"
## [1660] "EPHB1"
## [1661] "JAK3"
## [1662] "MBTD1"
## [1663] "GATA5"
## [1664] "OLFR1502"
## [1665] "SEC24A"
## [1666] "ZSCAN12"
## [1667] "ABHD13"
## [1668] "UNC5D"
## [1669] "REEP5"
## [1670] "FGF23"
## [1671] "EIF1AD"
## [1672] "CYP4F15"
## [1673] "NEO1"
## [1674] "GPR157"
## [1675] "ASB12"
## [1676] "RALGAPB"
## [1677] "HEY2"
## [1678] "RNF39"
## [1679] "CLDN2"
## [1680] "TET2"
## [1681] "C530047H08RIK"
## [1682] "PTPN22"
## [1683] "PLD2"
## [1684] "TPSAB1"
## [1685] "FAM96A"
## [1686] "ADAMTSL3"
## [1687] "EXOC2"
## [1688] "CALM1"
## [1689] "NUDT8"
## [1690] "SPCS3"
## [1691] "RUFY2"
## [1692] "TPP1"
## [1693] "ZFHX4"
## [1694] "CHST3"
## [1695] "BRWD1"
## [1696] "DONSON"
## [1697] "CD3E"
## [1698] "ARHGEF18"
## [1699] "SHC1"
## [1700] "AF366264"
## [1701] "GPRC5A"
## [1702] "RAPGEF1"
## [1703] "ZFP740"
## [1704] "ZFP759"
## [1705] "PXDN"
## [1706] "TES"
## [1707] "TCERG1"
## [1708] "SLCO5A1"
## [1709] "RORA"
## [1710] "CAPN6"
## [1711] "SMARCC1"
## [1712] "WDR76"
## [1713] "ABCC5"
## [1714] "NTN3"
## [1715] "ZFP7"
## [1716] "5430435G22RIK"
## [1717] "ZFP719"
## [1718] "SMYD4"
## [1719] "I730028E13RIK"
## [1720] "PTPRG"
## [1721] "STRA13"
## [1722] "YAP1"
## [1723] "SCML2"
## [1724] "VPS37B"
## [1725] "MICALL1"
## [1726] "AARS2"
## [1727] "TXK"
## [1728] "ZFP608"
## [1729] "GAA"
## [1730] "NECAP2"
## [1731] "TNFRSF1B"
## [1732] "SH2D7"
## [1733] "CCDC25"
## [1734] "IP6K2"
## [1735] "A930012L18RIK"
## [1736] "LRRC15"
## [1737] "LRCH1"
## [1738] "GPR63"
## [1739] "CDH26"
## [1740] "NACC2"
## [1741] "UGGT1"
## [1742] "CLPB"
## [1743] "SEMA3G"
## [1744] "CYTH3"
## [1745] "TMED7"
## [1746] "INPP4A"
## [1747] "PLCG1"
## [1748] "EXOC8"
## [1749] "HYAL1"
## [1750] "TMEM194"
## [1751] "RAB3D"
## [1752] "1600020E01RIK"
## [1753] "C130074G19RIK"
## [1754] "RND3"
## [1755] "2810459M11RIK"
## [1756] "PRKCQ"
## [1757] "GP49A"
## [1758] "PFKFB2"
## [1759] "FAM131B"
## [1760] "NRARP"
## [1761] "GM7457"
## [1762] "NRCAM"
## [1763] "GSDMCL-PS"
## [1764] "PRDX6"
## [1765] "GM10389"
## [1766] "POLDIP3"
## [1767] "STK11IP"
## [1768] "ATAD5"
## [1769] "ACVR2A"
## [1770] "ITIH5"
## [1771] "IL17RD"
## [1772] "AMBRA1"
## [1773] "NECAP1"
## [1774] "ZFP276"
## [1775] "FUT10"
## [1776] "GRAMD1B"
## [1777] "NR6A1"
## [1778] "LRP2BP"
## [1779] "TRIM21"
## [1780] "ZFP516"
## [1781] "C330008G21RIK"
## [1782] "MLLT6"
## [1783] "BC021767"
## [1784] "ANKIB1"
## [1785] "PGR15L"
## [1786] "A430078G23RIK"
## [1787] "DAAM2"
## [1788] "STX3"
## [1789] "TMEM161B"
## [1790] "C3AR1"
## [1791] "ATP6V1A"
## [1792] "MRPS15"
## [1793] "PKIG"
## [1794] "FES"
## [1795] "RAP1GAP2"
## [1796] "MARVELD3"
## [1797] "HSDL1"
## [1798] "IFFO2"
## [1799] "SEC16A"
## [1800] "FMO9"
## [1801] "MRPL17"
## [1802] "CHD3"
## [1803] "ZSWIM4"
## [1804] "SLC11A1"
## [1805] "HNRNPA1"
## [1806] "NUP210"
## [1807] "DPP3"
## [1808] "ADRBK2"
## [1809] "9430021M05RIK"
## [1810] "LGI1"
## [1811] "D930048N14RIK"
## [1812] "CTSO"
## [1813] "CALU"
## [1814] "NIPBL"
## [1815] "CASKIN1"
## [1816] "BTRC"
## [1817] "SLMAP"
## [1818] "D830032E09RIK"
## [1819] "JAM3"
## [1820] "RGS19"
## [1821] "FBXO27"
## [1822] "VAMP1"
## [1823] "CER1"
## [1824] "2410003L11RIK"
## [1825] "TMC7"
## [1826] "DOLPP1"
## [1827] "MIER3"
## [1828] "IL1R1"
## [1829] "SLC25A4"
## [1830] "TRIB2"
## [1831] "ARHGAP4"
## [1832] "PPP1R12C"
## [1833] "SAA4"
## [1834] "ITGA9"
## [1835] "BRAF"
## [1836] "MZF1"
## [1837] "C2"
## [1838] "PIGQ"
## [1839] "AP1M2"
## [1840] "BMP3"
## [1841] "ZFP593"
## [1842] "EHHADH"
## [1843] "ANO10"
## [1844] "ABL2"
## [1845] "ASCL1"
## [1846] "DBX2"
## [1847] "NUAK1"
## [1848] "GUCY1A3"
## [1849] "NOVA1"
## [1850] "4930544L04RIK"
## [1851] "MECP2"
## [1852] "HEATR5A"
## [1853] "MTX2"
## [1854] "APOL6"
## [1855] "RNF220"
## [1856] "EXOSC9"
## [1857] "B930082K07RIK"
## [1858] "GRPEL2"
## [1859] "SRCAP"
## [1860] "CPA4"
## [1861] "TMEM115"
## [1862] "GM4876"
## [1863] "MOV10"
## [1864] "CEP192"
## [1865] "ATG2B"
## [1866] "FAM102A"
## [1867] "1700099I09RIK"
## [1868] "CEP170"
## [1869] "GM3896"
## [1870] "EXOC5"
## [1871] "INTU"
## [1872] "ZFP862"
## [1873] "TMEM167"
## [1874] "DMD"
## [1875] "RRAS"
## [1876] "GM867"
## [1877] "DSCAM"
## [1878] "IGF2BP1"
## [1879] "ZFP652"
## [1880] "NEUROG3"
## [1881] "GXYLT1"
## [1882] "2610042L04RIK"
## [1883] "TRAK1"
## [1884] "AI854703"
## [1885] "LRRC18"
## [1886] "L3MBTL2"
## [1887] "ZFP71-RS1"
## [1888] "4632433K11RIK"
## [1889] "GGTA1"
## [1890] "LMOD1"
## [1891] "SLFN1"
## [1892] "HMGCLL1"
## [1893] "ZFP28"
## [1894] "CSNK1E"
## [1895] "3010001F23RIK"
## [1896] "FNDC5"
## [1897] "NECAB1"
## [1898] "RBM22"
## [1899] "LACTB2"
## [1900] "KPNA1"
## [1901] "C8A"
## [1902] "ZFP622"
## [1903] "ATIC"
## [1904] "PRRX1"
## [1905] "SUSD1"
## [1906] "LRRC2"
## [1907] "4931408C20RIK"
## [1908] "MAP4K5"
## [1909] "MYH8"
## [1910] "9330111N05RIK"
## [1911] "CNOT1"
## [1912] "ARPP19"
## [1913] "NHSL1"
## [1914] "FOXN2"
## [1915] "D2HGDH"
## [1916] "2810407C02RIK"
## [1917] "WHSC1L1"
## [1918] "RSRC1"
## [1919] "ADARB2"
## [1920] "CASC4"
## [1921] "IGFBP4"
## [1922] "LDOC1L"
## [1923] "GPR56"
## [1924] "HAS3"
## [1925] "FAM120B"
## [1926] "ACTR1B"
## [1927] "HOMER2"
## [1928] "SLC36A1"
## [1929] "AP3S2"
## [1930] "B630005N14RIK"
## [1931] "TMC1"
## [1932] "EPB4.1"
## [1933] "FAM19A1"
## [1934] "PDIK1L"
## [1935] "SUSD2"
## [1936] "DCAF10"
## [1937] "MED6"
## [1938] "E030013I19RIK"
## [1939] "EGR3"
## [1940] "SURF4"
## [1941] "BICD1"
## [1942] "REPIN1"
## [1943] "PATL1"
## [1944] "D14ABB1E"
## [1945] "MAT2B"
## [1946] "ADRA2B"
## [1947] "TTC24"
## [1948] "ATF7IP"
## [1949] "LASP1"
## [1950] "ASTN2"
## [1951] "RBM20"
## [1952] "CTNS"
## [1953] "FAM175B"
## [1954] "UBE2D3"
## [1955] "CAR1"
## [1956] "TRAF6"
## [1957] "G630025P09RIK"
## [1958] "LTA4H"
## [1959] "PTK2"
## [1960] "POLD3"
## [1961] "PHACTR4"
## [1962] "SCD1"
## [1963] "B3GAT2"
## [1964] "MS4A8A"
## [1965] "LYVE1"
## [1966] "CCDC148"
## [1967] "NR2C2"
## [1968] "MPL"
## [1969] "SYNPO2L"
## [1970] "GNB4"
## [1971] "ZF12"
## [1972] "TRIM26"
## [1973] "ASAH2"
## [1974] "GSR"
## [1975] "ST7"
## [1976] "D630033O11RIK"
## [1977] "SP100"
## [1978] "TET3"
## [1979] "CNR2"
## [1980] "TM4SF5"
## [1981] "DTX4"
## [1982] "KCNK5"
## [1983] "ETV5"
## [1984] "PKHD1"
## [1985] "AP2A1"
## [1986] "KLF3"
## [1987] "SMS"
## [1988] "RAB27B"
## [1989] "AA536875"
## [1990] "MIPEP"
## [1991] "ZFP488"
## [1992] "PRKAB2"
## [1993] "CDC6"
## [1994] "CSMD1"
## [1995] "AW011738"
## [1996] "NLGN1"
## [1997] "PRDM1"
## [1998] "SHPRH"
## [1999] "MEIS3"
## [2000] "BC052688"
## [2001] "POLE4"
## [2002] "MYH10"
## [2003] "BTBD7"
## [2004] "CSF3R"
## [2005] "SLC39A2"
## [2006] "OLFR536"
## [2007] "USP3"
## [2008] "LMF1"
## [2009] "TRAF4"
## [2010] "ABCB10"
## [2011] "LARS2"
## [2012] "ZFP871"
## [2013] "ACOT11"
## [2014] "STAM"
## [2015] "2310022A10RIK"
## [2016] "SMARCD1"
## [2017] "IL2"
## [2018] "GM15800"
## [2019] "SNF8"
## [2020] "LMX1A"
## [2021] "DYM"
## [2022] "SCD2"
## [2023] "MYCBP2"
## [2024] "4930581F22RIK"
## [2025] "RAB11B"
## [2026] "GPS1"
## [2027] "SLC35F4"
## [2028] "ASPH"
## [2029] "SPRN"
## [2030] "ONECUT1"
## [2031] "SLC38A8"
## [2032] "FATE1"
## [2033] "EHD1"
## [2034] "MYO5A"
## [2035] "SLC15A2"
## [2036] "CASK"
## [2037] "TNRC6C"
## [2038] "DHRS7C"
## [2039] "TMEM215"
## [2040] "ADAMTS19"
## [2041] "DDX10"
## [2042] "FRK"
## [2043] "PMP22"
## [2044] "1200014J11RIK"
## [2045] "RUSC2"
## [2046] "KLF12"
## [2047] "AMZ2"
## [2048] "PGAM5"
## [2049] "KCNJ15"
## [2050] "EFR3B"
## [2051] "FMN2"
## [2052] "NARS2"
## [2053] "AFF4"
## [2054] "WSB2"
## [2055] "NPHP4"
## [2056] "IL4I1"
## [2057] "HMGXB4"
## [2058] "NPLOC4"
## [2059] "SLC38A7"
## [2060] "ZFP185"
## [2061] "NLK"
## [2062] "CNP"
## [2063] "CPLX3"
## [2064] "GM6583"
## [2065] "DNM3OS"
## [2066] "SGCG"
## [2067] "CLEC4A1"
## [2068] "A630020A06"
## [2069] "MTMR7"
## [2070] "TMEM161A"
## [2071] "ACP1"
## [2072] "SLC4A8"
## [2073] "SPSB4"
## [2074] "CKLF"
## [2075] "TEAD3"
## [2076] "RIMS3"
## [2077] "PTK7"
## [2078] "APC2"
## [2079] "SLC28A2"
## [2080] "NUCB1"
## [2081] "VMN2R10"
## [2082] "4732465J04RIK"
## [2083] "ATAD1"
## [2084] "PEX5"
## [2085] "C230081A13RIK"
## [2086] "ZBTB20"
## [2087] "GORASP1"
## [2088] "MTOR"
## [2089] "FAM43A"
## [2090] "AP3M2"
## [2091] "TKTL2"
## [2092] "ST8SIA6"
## [2093] "ANKRD52"
## [2094] "LMAN1"
## [2095] "KEG1"
## [2096] "CLCN6"
## [2097] "LRRC8D"
## [2098] "LRFN4"
## [2099] "NHLRC2"
## [2100] "INADL"
## [2101] "DLC1"
## [2102] "UVRAG"
## [2103] "OVGP1"
## [2104] "DDOST"
## [2105] "SLC38A6"
## [2106] "AGTR2"
## [2107] "EPHA1"
## [2108] "HEG1"
## [2109] "MTCH2"
## [2110] "MPI"
## [2111] "NAT10"
## [2112] "PHF3"
## [2113] "AR"
## [2114] "ZFAND2A"
## [2115] "SLC13A4"
## [2116] "LRP1B"
## [2117] "NSG2"
## [2118] "E030003E18RIK"
## [2119] "PRTG"
## [2120] "GKAP1"
## [2121] "SDR42E1"
## [2122] "EPHA8"
## [2123] "GM16499"
## [2124] "TRPM1"
## [2125] "USP20"
## [2126] "CMAH"
## [2127] "CAMK4"
## [2128] "ITGA4"
## [2129] "CD200R3"
## [2130] "TNFSF10"
## [2131] "ORMDL1"
## [2132] "LOC627891"
## [2133] "FBXW17"
## [2134] "PRRG3"
## [2135] "PRDM5"
## [2136] "PALM2"
## [2137] "TAOK1"
## [2138] "BTF3L4"
## [2139] "EPX"
## [2140] "PPP1R2"
## [2141] "HS6ST2"
## [2142] "HSPA14"
## [2143] "SERINC4"
## [2144] "WIPF2"
## [2145] "ZKSCAN17"
## [2146] "ZFP68"
## [2147] "PTGS2"
## [2148] "GM4793"
## [2149] "PTK6"
## [2150] "BAHD1"
## [2151] "ATR"
## [2152] "NPC2"
## [2153] "OBSCN"
## [2154] "GPR155"
## [2155] "SMUG1"
## [2156] "CAPNS1"
## [2157] "FBXL5"
## [2158] "EPHB2"
## [2159] "ROBO2"
## [2160] "PARP9"
## [2161] "1700016L04RIK"
## [2162] "CHM"
## [2163] "INTS4"
## [2164] "2210408F21RIK"
## [2165] "C920021L13RIK"
## [2166] "ARID1B"
## [2167] "ELOVL1"
## [2168] "HDAC11"
## [2169] "PARD6G"
## [2170] "SLC2A13"
## [2171] "GPR137B"
## [2172] "GSDMC2"
## [2173] "FTSJ1"
## [2174] "MACROD2"
## [2175] "CREG1"
## [2176] "ADAM28"
## [2177] "TLN1"
## [2178] "2310014L17RIK"
## [2179] "NAP1L1"
## [2180] "PIGN"
## [2181] "CSPG5"
## [2182] "PPP2R3A"
## [2183] "VWA5A"
## [2184] "TTLL12"
## [2185] "CLDN1"
## [2186] "KLHL24"
## [2187] "ADAM22"
## [2188] "NEU3"
## [2189] "PLD6"
## [2190] "NIPAL4"
## [2191] "RNF130"
## [2192] "RASSF4"
## [2193] "PCNXL2"
## [2194] "FANCC"
## [2195] "GAD2"
## [2196] "ACER2"
## [2197] "9230117E06RIK"
## [2198] "PLA2G4D"
## [2199] "CRB2"
## [2200] "UBE2E1"
## [2201] "TMEM104"
## [2202] "CX3CR1"
## [2203] "GUCA1B"
## [2204] "NRXN2"
## [2205] "ATG9A"
## [2206] "MGA"
## [2207] "LGR5"
## [2208] "RGS2"
## [2209] "ATF6B"
## [2210] "BTG2"
## [2211] "ZCCHC6"
## [2212] "PNMA2"
## [2213] "TMEM79"
## [2214] "DVL3"
## [2215] "ADH6-PS1"
## [2216] "1700020I14RIK"
## [2217] "NUP214"
## [2218] "1700001C19RIK"
## [2219] "GFM2"
## [2220] "SH3YL1"
## [2221] "PI4KA"
## [2222] "DDB1"
## [2223] "FAM178A"
## [2224] "ZBTB46"
## [2225] "TNNI3K"
## [2226] "MEG3"
## [2227] "FAR2"
## [2228] "FCHSD2"
## [2229] "PIAS4"
## [2230] "TCTE2"
## [2231] "PEX6"
## [2232] "FOXO1"
## [2233] "4930425L21RIK"
## [2234] "KCNA1"
## [2235] "PTCD3"
## [2236] "4930529M08RIK"
## [2237] "TRPM5"
## [2238] "CPLX4"
## [2239] "CD28"
## [2240] "PEG10"
## [2241] "LYNX1"
## [2242] "HOXB4"
## [2243] "NPEPL1"
## [2244] "E130309D14RIK"
## [2245] "DENND3"
## [2246] "GRIP2"
## [2247] "AGPAT5"
## [2248] "PTPRM"
## [2249] "TXNDC5"
## [2250] "ZFP456"
## [2251] "TNFSF13B"
## [2252] "EXOC3"
## [2253] "DUSP28"
## [2254] "GPRC5C"
## [2255] "RICTOR"
## [2256] "PIF1"
## [2257] "IFT57"
## [2258] "STEAP2"
## [2259] "DNAJC18"
## [2260] "CAMK1D"
## [2261] "PPM1A"
## [2262] "BC037704"
## [2263] "BYSL"
## [2264] "NAA15"
## [2265] "PLEKHA4"
## [2266] "SCAI"
## [2267] "GM13139"
## [2268] "ZFP597"
## [2269] "HMCN1"
## [2270] "ZFP160"
## [2271] "ARHGAP29"
## [2272] "DNAJC12"
## [2273] "TXNDC11"
## [2274] "ATP10B"
## [2275] "FRY"
## [2276] "TUBA1B"
## [2277] "2010111I01RIK"
## [2278] "LOXL4"
## [2279] "ERC2"
## [2280] "4932438A13RIK"
## [2281] "1110057K04RIK"
## [2282] "PGAP3"
## [2283] "PLEK2"
## [2284] "NARG2"
## [2285] "GPX7"
## [2286] "AFF1"
## [2287] "ZBP1"
## [2288] "SMOK4A"
## [2289] "ZFP11"
## [2290] "MANEAL"
## [2291] "COL4A1"
## [2292] "CCDC78"
## [2293] "ACSS1"
## [2294] "LSM14A"
## [2295] "ZFP280B"
## [2296] "SLC19A2"
## [2297] "COL4A2"
## [2298] "NYNRIN"
## [2299] "BRCC3"
## [2300] "EP300"
## [2301] "CPNE7"
## [2302] "DENND1A"
## [2303] "ASCL3"
## [2304] "LIFR"
## [2305] "TRAPPC5"
## [2306] "UHRF1BP1"
## [2307] "FMR1"
## [2308] "STK40"
## [2309] "SLC41A2"
## [2310] "ZBTB43"
## [2311] "RAB11FIP1"
## [2312] "ADAMTS20"
## [2313] "RNMT"
## [2314] "MTMR2"
## [2315] "ENC1"
## [2316] "VMN1R58"
## [2317] "ASAH1"
## [2318] "KLHL12"
## [2319] "COL6A2"
## [2320] "CD209E"
## [2321] "MAGI1"
## [2322] "GNAO1"
## [2323] "TRPM3"
## [2324] "GOLGA7B"
## [2325] "DPY19L1"
## [2326] "GM5108"
## [2327] "CALD1"
## [2328] "IER3IP1"
## [2329] "UGP2"
## [2330] "GML"
## [2331] "SYT1"
## [2332] "CWF19L1"
## [2333] "DICER1"
## [2334] "LIMD1"
## [2335] "SLC7A1"
## [2336] "SOX11"
## [2337] "ST8SIA2"
## [2338] "DNAJB11"
## [2339] "SNAP29"
## [2340] "4930532M18RIK"
## [2341] "A530054K11RIK"
## [2342] "CADM3"
## [2343] "IDS"
## [2344] "ISLR2"
## [2345] "MAP3K3"
## [2346] "BRCA1"
## [2347] "NID1"
## [2348] "PRODH"
## [2349] "AGPAT1"
## [2350] "RINL"
## [2351] "MAPK1"
## [2352] "FUBP1"
## [2353] "SYPL2"
## [2354] "PID1"
## [2355] "GM13476"
## [2356] "9930013L23RIK"
## [2357] "BCL7C"
## [2358] "UHRF1BP1L"
## [2359] "9530051G07RIK"
## [2360] "CEBPD"
## [2361] "IGF2BP2"
## [2362] "HIST1H2AC"
## [2363] "MPG"
## [2364] "LYST"
## [2365] "APBB1IP"
## [2366] "MED20"
## [2367] "4931406H21RIK"
## [2368] "MELK"
## [2369] "SUCLG2"
## [2370] "FAM84B"
## [2371] "ZFP462"
## [2372] "PSME3"
## [2373] "BC068157"
## [2374] "4931406C07RIK"
## [2375] "SMCR7L"
## [2376] "CRP"
## [2377] "AQP2"
## [2378] "RPGRIP1L"
## [2379] "CELF2"
## [2380] "SLC24A2"
## [2381] "FAM117A"
## [2382] "GM16432"
## [2383] "5730588L14RIK"
## [2384] "LOC545966"
## [2385] "MAN2B1"
## [2386] "N28178"
## [2387] "RFNG"
## [2388] "PTPRD"
## [2389] "ZC3HAV1"
## [2390] "KHK"
## [2391] "LSM11"
## [2392] "SNRNP48"
## [2393] "FEV"
## [2394] "KLF6"
## [2395] "PITPNM3"
## [2396] "RPRML"
## [2397] "B230325K18RIK"
## [2398] "SLC9A1"
## [2399] "AKAP8"
## [2400] "ATXN3"
## [2401] "COMMD2"
## [2402] "PLA2G15"
## [2403] "CDK6"
## [2404] "FIGNL1"
## [2405] "GRK1"
## [2406] "SULT4A1"
## [2407] "GM6999"
## [2408] "NKAIN2"
## [2409] "DIO2"
## [2410] "CSRNP2"
## [2411] "ZIK1"
## [2412] "SDHAF2"
## [2413] "GCK"
## [2414] "PPAPDC2"
## [2415] "IPO9"
## [2416] "KCNK18"
## [2417] "PPIL2"
## [2418] "LSAMP"
## [2419] "VPS13A"
## [2420] "UCHL3"
## [2421] "GM6086"
## [2422] "VPS13C"
## [2423] "FGF15"
## [2424] "HCN1"
## [2425] "IQCK"
## [2426] "ZFP30"
## [2427] "RPAP1"
## [2428] "NME1"
## [2429] "RCL1"
## [2430] "FBLN5"
## [2431] "PPM1D"
## [2432] "BTBD3"
## [2433] "SCN8A"
## [2434] "4930523C07RIK"
## [2435] "GDAP1L1"
## [2436] "ALKBH1"
## [2437] "CYP3A41A"
## [2438] "PSG29"
## [2439] "CXCR2"
## [2440] "SLC26A9"
## [2441] "TMEM177"
## [2442] "PIBF1"
## [2443] "MED15"
## [2444] "PRPS2"
## [2445] "PPP1R9A"
## [2446] "HSD3B2"
## [2447] "SLC11A2"
## [2448] "CORO1C"
## [2449] "CSNK1D"
## [2450] "POT1B"
## [2451] "2700089E24RIK"
## [2452] "GABRA4"
## [2453] "DVL2"
## [2454] "COPZ1"
## [2455] "RSF1"
## [2456] "TAF5"
## [2457] "PHYHIP"
## [2458] "CD164"
## [2459] "CCDC97"
## [2460] "ENTPD6"
## [2461] "RXFP3"
## [2462] "UBE2J1"
## [2463] "CALCR"
## [2464] "PLCXD3"
## [2465] "CASP12"
## [2466] "PHF20L1"
## [2467] "ZFP831"
## [2468] "KCNK3"
## [2469] "PMM2"
## [2470] "PCCB"
## [2471] "NDRG1"
## [2472] "PTPRJ"
## [2473] "RPF2"
## [2474] "D730039F16RIK"
## [2475] "BB287469"
## [2476] "BRPF3"
## [2477] "BRD8"
## [2478] "DUSP6"
## [2479] "CASC3"
## [2480] "C330018A13RIK"
## [2481] "DUSP7"
## [2482] "SIK2"
## [2483] "NGP"
## [2484] "TAF8"
## [2485] "CLINT1"
## [2486] "TBATA"
## [2487] "PLA2G4C"
## [2488] "TMEM125"
## [2489] "4930417O13RIK"
## [2490] "CYLD"
## [2491] "CD96"
## [2492] "STYX"
## [2493] "NAPG"
## [2494] "OPCML"
## [2495] "USP8"
## [2496] "TAF4B"
## [2497] "CYTH1"
## [2498] "AJAP1"
## [2499] "CDC23"
## [2500] "ORAI1"
## [2501] "SEL1L3"
## [2502] "TRIM71"
## [2503] "HNRNPM"
## [2504] "PMAIP1"
## [2505] "SSTR3"
## [2506] "CLCC1"
## [2507] "SORT1"
## [2508] "GM3696"
## [2509] "SRRM1"
## [2510] "COL3A1"
## [2511] "GABRB3"
## [2512] "ZFP433"
## [2513] "ZFP712"
## [2514] "STXBP4"
## [2515] "XK"
## [2516] "SIT1"
## [2517] "KDELR3"
## [2518] "4933404I11RIK"
## [2519] "CD99L2"
## [2520] "PDGFB"
## [2521] "CCDC39"
## [2522] "AOX1"
## [2523] "PLA2G2F"
## [2524] "FUZ"
## [2525] "CPN1"
## [2526] "ANGPTL3"
## [2527] "KCNQ2"
## [2528] "OSTM1"
## [2529] "IPO8"
## [2530] "KCNC1"
## [2531] "DNAHC5"
## [2532] "5430400D12RIK"
## [2533] "SEH1L"
## [2534] "SPON2"
## [2535] "RFX5"
## [2536] "PRR5L"
## [2537] "RRAGC"
## [2538] "PPTC7"
## [2539] "LAIR1"
## [2540] "RP1"
## [2541] "IARS2"
## [2542] "MRPL34"
## [2543] "XPO7"
## [2544] "IL22"
## [2545] "AP3D1"
## [2546] "GOLGA2"
## [2547] "IL20RB"
## [2548] "FASTKD1"
## [2549] "SLC39A8"
## [2550] "TBC1D13"
## [2551] "5430425J12RIK"
## [2552] "CDC25B"
## [2553] "FREM2"
## [2554] "MAMDC2"
## [2555] "GM10516"
## [2556] "SOX9"
## [2557] "LANCL2"
## [2558] "HTR5A"
## [2559] "B130024G19RIK"
## [2560] "ZFP526"
## [2561] "A330009N23RIK"
## [2562] "BCL7B"
## [2563] "SALL3"
## [2564] "KBTBD11"
## [2565] "SEC63"
## [2566] "CIAPIN1"
## [2567] "GM11194"
## [2568] "AKAP10"
## [2569] "MLLT3"
## [2570] "GPR165"
## [2571] "CYP2J6"
## [2572] "PCSK7"
## [2573] "CNR1"
## [2574] "SLC6A6"
## [2575] "FOXR1"
## [2576] "CPNE5"
## [2577] "RAB33B"
## [2578] "S100A1"
## [2579] "VAMP3"
## [2580] "1700066B19RIK"
## [2581] "SGCB"
## [2582] "YPEL2"
## [2583] "C2CD2"
## [2584] "GRM7"
## [2585] "GABRG2"
## [2586] "E2F2"
## [2587] "TGIF2"
## [2588] "SMG1"
## [2589] "FOXK2"
## [2590] "WNT9B"
## [2591] "TTC23L"
## [2592] "A530072M11RIK"
## [2593] "SEMA4F"
## [2594] "REEP1"
## [2595] "RELN"
## [2596] "RAD54L2"
## [2597] "WFDC5"
## [2598] "AWAT2"
## [2599] "CLN5"
## [2600] "FAT4"
## [2601] "SHISA6"
## [2602] "HK2"
## [2603] "RAG1"
## [2604] "ANAPC1"
## [2605] "PSTK"
## [2606] "KCNJ10"
## [2607] "TNFRSF23"
## [2608] "MTF1"
## [2609] "4930506M07RIK"
## [2610] "NIPSNAP1"
## [2611] "ZFP697"
## [2612] "RRM2"
## [2613] "TRIM42"
## [2614] "1700029F12RIK"
## [2615] "RTP1"
## [2616] "ADAMTS6"
## [2617] "P4HTM"
## [2618] "PSMD2"
## [2619] "LMAN2"
## [2620] "CHKA"
## [2621] "CCND2"
## [2622] "ERO1L"
## [2623] "SLC15A1"
## [2624] "CACNA1E"
## [2625] "CHAF1B"
## [2626] "RAB37"
## [2627] "ZMYM6"
## [2628] "NTM"
## [2629] "4930402D18RIK"
## [2630] "KLRC2"
## [2631] "XCR1"
## [2632] "B230354K17RIK"
## [2633] "SDK1"
## [2634] "REEP4"
## [2635] "CPT1C"
## [2636] "NFKB2"
## [2637] "LMTK2"
## [2638] "DOT1L"
## [2639] "HIST1H2BE"
## [2640] "KCTD7"
## [2641] "4921513I03RIK"
## [2642] "TOB2"
## [2643] "TMED4"
## [2644] "INTS12"
## [2645] "KCND3"
## [2646] "UGGT2"
## [2647] "SHPK"
## [2648] "MRPL19"
## [2649] "OLFR121"
## [2650] "TEAD1"
## [2651] "PDCD7"
## [2652] "TSEN34"
## [2653] "RHOBTB2"
## [2654] "DGCR14"
## [2655] "BC058420"
## [2656] "DTNB"
## [2657] "LEPROTL1"
## [2658] "SPRYD4"
## [2659] "SPRY4"
## [2660] "AFAP1"
## [2661] "GABPB1"
## [2662] "TMEM214"
## [2663] "LEP"
## [2664] "BFSP2"
## [2665] "TBX19"
## [2666] "GLB1"
## [2667] "HDGFRP3"
## [2668] "PNP"
## [2669] "BHLHA15"
## [2670] "BOD1L"
## [2671] "E2F7"
## [2672] "GYPC"
## [2673] "D230017M19RIK"
## [2674] "CRLF3"
## [2675] "PYCR1"
## [2676] "DOCK2"
## [2677] "RABGAP1L"
## [2678] "ZFAND3"
## [2679] "ZRANB2"
## [2680] "LAMC3"
## [2681] "BIK"
## [2682] "CRK"
## [2683] "EPHA4"
## [2684] "NXNL1"
## [2685] "PIGV"
## [2686] "ARFGEF2"
## [2687] "SH3BGRL2"
## [2688] "TDO2"
## [2689] "ZCCHC5"
## [2690] "4933413J09RIK"
## [2691] "GM6498"
## [2692] "A230051N06RIK"
## [2693] "3110082I17RIK"
## [2694] "KLHL5"
## [2695] "9530052C20RIK"
## [2696] "SDK2"
## [2697] "MAOA"
## [2698] "UGT3A1"
## [2699] "CHD7"
## [2700] "WNT9A"
## [2701] "CAT"
## [2702] "GABRA3"
## [2703] "FAM110B"
## [2704] "3110006O06RIK"
## [2705] "TRIM67"
## [2706] "4933415F23RIK"
## [2707] "CYP2C38"
## [2708] "SLC30A4"
## [2709] "KHDRBS2"
## [2710] "ZFP120"
## [2711] "2810047C21RIK1"
## [2712] "NSUN2"
## [2713] "ABCB7"
## [2714] "FAM57A"
## [2715] "BCKDK"
## [2716] "HSD3B6"
## [2717] "4921536K21RIK"
## [2718] "FOXN4"
## [2719] "GPCPD1"
## [2720] "4930524L23RIK"
## [2721] "MS4A18"
## [2722] "FGR"
## [2723] "HIST3H2BA"
## [2724] "CHD9"
## [2725] "1700029H14RIK"
## [2726] "RAI14"
## [2727] "ELAC1"
## [2728] "FAM194A"
## [2729] "DPP6"
## [2730] "EIF5B"
## [2731] "CALM4"
## [2732] "PIGU"
## [2733] "ING5"
## [2734] "A330008L17RIK"
## [2735] "FAM13B"
## [2736] "COPA"
## [2737] "PLAA"
## [2738] "IL10"
## [2739] "F13A1"
## [2740] "A930009E05RIK"
## [2741] "SAMD8"
## [2742] "ARCN1"
## [2743] "TMEFF2"
## [2744] "KPNA7"
## [2745] "SLC43A1"
## [2746] "RAD23B"
## [2747] "WDR33"
## [2748] "USP49"
## [2749] "CSTF3"
## [2750] "CENPL"
## [2751] "1810013L24RIK"
## [2752] "GABRB2"
## [2753] "PTGDS"
## [2754] "DNAHC7B"
## [2755] "FREM1"
## [2756] "DOCK9"
## [2757] "RMND1"
## [2758] "TMEM29"
## [2759] "FOXJ3"
## [2760] "ZKSCAN1"
## [2761] "FAM160B2"
## [2762] "ITPKC"
## [2763] "ABCB11"
## [2764] "4933417D19RIK"
## [2765] "GPR137B-PS"
## [2766] "CCNL2"
## [2767] "GNB3"
## [2768] "SFXN5"
## [2769] "APH1C"
## [2770] "CYB5R4"
## [2771] "GM5101"
## [2772] "CC2D1A"
## [2773] "LIN52"
## [2774] "RASGRP4"
## [2775] "C820005J03RIK"
## [2776] "GALNT1"
## [2777] "2310035C23RIK"
## [2778] "RIAN"
## [2779] "IKZF4"
## [2780] "FADS3"
## [2781] "PROSC"
## [2782] "FLYWCH1"
## [2783] "RGS9"
## [2784] "OCIAD1"
## [2785] "EPS8L1"
## [2786] "SDC2"
## [2787] "ZFP113"
## [2788] "SLC16A14"
## [2789] "COL5A3"
## [2790] "MAP2K5"
## [2791] "STAT2"
## [2792] "ZFP553"
## [2793] "METTL6"
## [2794] "SENP1"
## [2795] "BPHL"
## [2796] "TMEM47"
## [2797] "CENPC1"
## [2798] "STARD5"
## [2799] "9430020K01RIK"
## [2800] "NKAIN3"
## [2801] "TCAM1"
## [2802] "CCL22"
## [2803] "GM7729"
## [2804] "ERMAP"
## [2805] "DPP9"
## [2806] "TERF2IP"
## [2807] "GJE1"
## [2808] "VRK2"
## [2809] "HELQ"
## [2810] "MMGT1"
## [2811] "PACS2"
## [2812] "SERINC1"
## [2813] "USP9X"
## [2814] "GPR123"
## [2815] "N4BP2L2"
## [2816] "CDS1"
## [2817] "2210016L21RIK"
## [2818] "GGA3"
## [2819] "BC016579"
## [2820] "COG8"
## [2821] "VPS13B"
## [2822] "RLIM"
## [2823] "CNIH"
## [2824] "NUP188"
## [2825] "ABCE1"
## [2826] "DAD1"
## [2827] "GNAQ"
## [2828] "TMEM130"
## [2829] "GDF6"
## [2830] "CASP4"
## [2831] "RELL1"
## [2832] "SLC19A1"
## [2833] "CCDC163"
## [2834] "ANKRD44"
## [2835] "NSA2"
## [2836] "CAR2"
## [2837] "SLC29A3"
## [2838] "HBEGF"
## [2839] "SLC7A11"
## [2840] "ACSS2"
## [2841] "MRPS25"
## [2842] "PGM3"
## [2843] "MEGF10"
## [2844] "SMURF1"
## [2845] "ZFP362"
## [2846] "TERT"
## [2847] "SLC34A2"
## [2848] "SLC20A1"
## [2849] "FAM13C"
## [2850] "DSCR3"
## [2851] "CREG2"
## [2852] "TAB1"
## [2853] "PHLPP2"
## [2854] "GALNT2"
## [2855] "ROCK2"
## [2856] "ORAOV1"
## [2857] "AP3M1"
## [2858] "OSGIN2"
## [2859] "WNT1"
## [2860] "APOBEC2"
## [2861] "L3MBTL3"
## [2862] "ONECUT2"
## [2863] "RSBN1L"
## [2864] "IGSF11"
## [2865] "MURC"
## [2866] "B230120H23RIK"
## [2867] "NFIA"
## [2868] "SIPA1L1"
## [2869] "D930028M14RIK"
## [2870] "MUC3"
## [2871] "LPAR2"
## [2872] "PKP1"
## [2873] "RGS8"
## [2874] "1700016G14RIK"
## [2875] "4930543N07RIK"
## [2876] "IGF2"
## [2877] "SRPX2"
## [2878] "NFRKB"
## [2879] "NQO1"
## [2880] "PASK"
## [2881] "TSC1"
## [2882] "SIRT7"
## [2883] "1700018B24RIK"
## [2884] "B230307C23RIK"
## [2885] "CBLN4"
## [2886] "CAMK2A"
## [2887] "1700055N04RIK"
## [2888] "MTHFR"
## [2889] "FBXW10"
## [2890] "ZFP748"
## [2891] "KYNU"
## [2892] "PAPPA"
## [2893] "RPS24"
## [2894] "CRAMP1L"
## [2895] "DDX21"
## [2896] "CSMD2"
## [2897] "ZFP523"
## [2898] "ITGAV"
## [2899] "4921529L05RIK"
## [2900] "UBXN1"
## [2901] "GAS8"
## [2902] "TPBPA"
## [2903] "EPPK1"
## [2904] "GM1070"
## [2905] "NTN1"
## [2906] "TROVE2"
## [2907] "COL22A1"
## [2908] "TNFAIP3"
## [2909] "RFC3"
## [2910] "ROBO1"
## [2911] "HRAS1"
## [2912] "CNN1"
## [2913] "GRIP1"
## [2914] "GABRD"
## [2915] "DOCK4"
## [2916] "GFOD1"
## [2917] "HAT1"
## [2918] "PFKFB4"
## [2919] "PIP4K2B"
## [2920] "RAB8B"
## [2921] "HAS2"
## [2922] "C920009B18RIK"
## [2923] "FNTB"
## [2924] "BC048559"
## [2925] "PLCE1"
## [2926] "DOPEY2"
## [2927] "NPHP3"
## [2928] "ELAVL1"
## [2929] "MRPL50"
## [2930] "2010012O05RIK"
## [2931] "MED9"
## [2932] "4933431K23RIK"
## [2933] "FAM126A"
## [2934] "ELF5"
## [2935] "MED25"
## [2936] "CAMK2B"
## [2937] "BRDT"
## [2938] "ZFR2"
## [2939] "MEX3A"
## [2940] "KDM4C"
## [2941] "ADARB1"
## [2942] "PMPCA"
## [2943] "ARPP21"
## [2944] "BNIP1"
## [2945] "EFCAB8"
## [2946] "ATAD3A"
## [2947] "RASSF8"
## [2948] "SLC31A2"
## [2949] "GM15053"
## [2950] "A830011K09RIK"
## [2951] "IDI2"
## [2952] "TYW1"
## [2953] "ABHD10"
## [2954] "PRAMEL1"
## [2955] "TMEM30A"
## [2956] "MMP12"
## [2957] "FGF16"
## [2958] "CHD4"
## [2959] "PARVG"
## [2960] "ARHGAP11A"
## [2961] "ONECUT3"
## [2962] "SSBP2"
## [2963] "MLL3"
## [2964] "DCLK1"
## [2965] "STX8"
## [2966] "BC049265"
## [2967] "VOPP1"
## [2968] "HK1"
## [2969] "RNF111"
## [2970] "SOCS7"
## [2971] "PLXNC1"
## [2972] "TMED5"
## [2973] "FBXO42"
## [2974] "CAR12"
## [2975] "WDR35"
## [2976] "LARGE"
## [2977] "ZBTB22"
## [2978] "RDH1"
## [2979] "ZBTB49"
## [2980] "ITSN1"
## [2981] "AI197445"
## [2982] "MFRP"
## [2983] "GM904"
## [2984] "ATL2"
## [2985] "MKRN2"
## [2986] "MSRB3"
## [2987] "PIR"
## [2988] "ELP2"
## [2989] "ZFP91"
## [2990] "KRT26"
## [2991] "CPD"
## [2992] "TMEM116"
## [2993] "TMEM170"
## [2994] "TLK1"
## [2995] "SH2D4A"
## [2996] "NUP98"
## [2997] "CXX1C"
## [2998] "IDH2"
## [2999] "SERPINA4-PS1"
## [3000] "CNPY1"
## [3001] "F730048M01RIK"
## [3002] "GTF3C2"
## [3003] "5430416O09RIK"
## [3004] "AQP1"
## [3005] "PTCD1"
## [3006] "NPC1"
## [3007] "GM5784"
## [3008] "PSG26"
## [3009] "GM13262"
## [3010] "CD274"
## [3011] "OSBPL8"
## [3012] "RBMX"
## [3013] "MCPH1"
## [3014] "LRRC59"
## [3015] "EXT2"
## [3016] "PSG25"
## [3017] "DMRTA1"
## [3018] "GM1653"
## [3019] "GDPD4"
## [3020] "GM5166"
## [3021] "ADCY10"
## [3022] "F730311O21RIK"
## [3023] "1810009N23RIK"
## [3024] "TTC39B"
## [3025] "FAM101B"
## [3026] "1110059G10RIK"
## [3027] "POP5"
## [3028] "PAX1"
## [3029] "MBNL1"
## [3030] "EFTUD1"
## [3031] "STMN2"
## [3032] "ZFP664"
## [3033] "AKAP6"
## [3034] "ZBTB40"
## [3035] "ZFP106"
## [3036] "CAPZA2"
## [3037] "FAM73A"
## [3038] "RASL12"
## [3039] "EFNB3"
## [3040] "ELOVL3"
## [3041] "GGPS1"
## [3042] "GM5643"
## [3043] "FAM115A"
## [3044] "ARC"
## [3045] "LYSMD3"
## [3046] "GLTPD1"
## [3047] "TMEM180"
## [3048] "AI593442"
## [3049] "SLCO1A4"
## [3050] "CHFR"
## [3051] "UBFD1"
## [3052] "KPNA6"
## [3053] "GRID2"
## [3054] "DMP1"
## [3055] "MYO1B"
## [3056] "EGLN2"
## [3057] "SRGAP3"
## [3058] "E230001N04RIK"
## [3059] "2310069G16RIK"
## [3060] "9530053A07RIK"
## [3061] "TMX3"
## [3062] "CCDC15"
## [3063] "TSPAN3"
## [3064] "MUM1L1"
## [3065] "LRRC9"
## [3066] "FOXL1"
## [3067] "USP22"
## [3068] "MED10"
## [3069] "PRPH2"
## [3070] "ZFP334"
## [3071] "P2RY4"
## [3072] "CDH12"
## [3073] "4933424M12RIK"
## [3074] "DUSP11"
## [3075] "UBXN2B"
## [3076] "1200011I18RIK"
## [3077] "RNGTT"
## [3078] "OPN1MW"
## [3079] "PCGF3"
## [3080] "CSNK2A2"
## [3081] "DYNLT3"
## [3082] "SLC10A5"
## [3083] "ATPAF1"
## [3084] "TCF23"
## [3085] "C330005M16RIK"
## [3086] "KCNH1"
## [3087] "CHD6"
## [3088] "CAR10"
## [3089] "NT5E"
## [3090] "CCDC42"
## [3091] "VAMP7"
## [3092] "TRAF3IP2"
## [3093] "9430016H08RIK"
## [3094] "CCDC3"
## [3095] "SLC9A3"
## [3096] "D930020B18RIK"
## [3097] "VPS26B"
## [3098] "IQSEC2"
## [3099] "COMMD7"
## [3100] "CCDC158"
## [3101] "THBD"
## [3102] "OMP"
## [3103] "DDX24"
## [3104] "PLN"
## [3105] "G730013B05RIK"
## [3106] "MPP7"
## [3107] "FNBP1L"
## [3108] "SMAP2"
## [3109] "SH2D1B1"
## [3110] "TMEM98"
## [3111] "GM5478"
## [3112] "NAT8L"
## [3113] "POMP"
## [3114] "SHC2"
## [3115] "HMG20A"
## [3116] "WNT3A"
## [3117] "SECTM1A"
## [3118] "LRP8"
## [3119] "ZC3H10"
## [3120] "ZFP397"
## [3121] "ST5"
## [3122] "ADC"
## [3123] "ESR2"
## [3124] "MESDC1"
## [3125] "RHOJ"
## [3126] "NACC1"
## [3127] "MAN1B1"
## [3128] "SCLT1"
## [3129] "IMPAD1"
## [3130] "QARS"
## [3131] "ZFP689"
## [3132] "COG2"
## [3133] "BCAM"
## [3134] "BRIP1"
## [3135] "SACM1L"
## [3136] "TTF1"
## [3137] "GM4890"
## [3138] "ATP1A2"
## [3139] "CXXC4"
## [3140] "STK24"
## [3141] "ERF"
## [3142] "KLHL2"
## [3143] "PLEKHG5"
## [3144] "WBSCR17"
## [3145] "QSOX1"
## [3146] "LRRC55"
## [3147] "UBA2"
## [3148] "E330009J07RIK"
## [3149] "TCRB-J"
## [3150] "PRKX"
## [3151] "BRI3"
## [3152] "ST8SIA1"
## [3153] "2010110K18RIK"
## [3154] "CD226"
## [3155] "MED29"
## [3156] "TYROBP"
## [3157] "GM15401"
## [3158] "MRGPRA3"
## [3159] "GPR55"
## [3160] "1700073E17RIK"
## [3161] "MSR1"
## [3162] "4930547E14RIK"
## [3163] "RGP1"
## [3164] "C330004P14RIK"
## [3165] "COL4A5"
## [3166] "LPCAT2"
## [3167] "CYP2J9"
## [3168] "CHST2"
## [3169] "D930048G16RIK"
## [3170] "SVIP"
## [3171] "D11WSU47E"
## [3172] "FAM20B"
## [3173] "LNX1"
## [3174] "PTRF"
## [3175] "WNT10A"
## [3176] "SLC27A4"
## [3177] "PPARGC1A"Translating to human
An alternative is that we translate our human MSigDB collection to mouse gene set, and throw away terms specific to human (such as chromosome location).
Thankfully someone already did just this for us (and they also do regular updates).
We can find mouse translations from human here and we can load the RDS object directly into our session.
## [1] "list"Translating to human
This contains a named list gene sets converted to mouse Entrez IDs.
## $HALLMARK_TNFA_SIGNALING_VIA_NFKB
## [1] "11303" "11304" "27403" "268379" "74591" "11305" "12778" "11839"
## [9] "11910" "67972" "11941" "320707" "381290" "14595" "56336" "12044"
## [17] "12047" "12045" "12046" "12051" "12053" "20893" "11797" "11796"
## [25] "17951" "17952" "17940" "17948" "12156" "12226" "194735" "436199"
## [33] "12227" "12228" "20293" "20296" "20292" "20306" "20297" "20303"
## [41] "20304" "16007" "14219" "12443" "12444" "12445" "56706" "56036"
## [49] "54199" "12505" "12515" "12519" "12522" "12575" "12608" "12609"
## [57] "12633" "56708" "12977" "12981" "14825" "20310" "330122" "20309"
## [65] "15945" "56066" "20311" "230073" "19347" "320560" "67035" "71712"
## [73] "19252" "319520" "13537" "240672" "13614" "13636" "13653" "13654"
## [81] "13655" "13660" "57440" "98878" "259300" "20918" "68969" "23872"
## [89] "14063" "14066" "14221" "14281" "14282" "14283" "14284" "14345"
## [97] "14373" "13197" "23882" "17873" "14528" "14579" "14584" "321019"
## [105] "15200" "15205" "15894" "15898" "50723" "230623" "230613" "329918"
## [113] "15902" "15936" "15937" "15939" "71586" "15958" "15959" "667370"
## [121] "15980" "16160" "16169" "16173" "16175" "16176" "83430" "16193"
## [129] "16195" "16197" "16323" "16324" "16362" "384783" "16369" "16367"
## [137] "16449" "16450" "16476" "16477" "16478" "216850" "22290" "21847"
## [145] "16598" "16600" "16596" "236537" "23849" "16601" "70789" "16780"
## [153] "16835" "22359" "16878" "56722" "17133" "26397" "26399" "26410"
## [161] "17118" "17210" "17681" "17119" "17869" "107771" "59027" "54446"
## [169] "18024" "18030" "18033" "18034" "18035" "18037" "18081" "15370"
## [177] "18227" "18124" "108078" "381816" "55991" "208098" "18578" "238871"
## [185] "110385" "18577" "56376" "67399" "18626" "18627" "170768" "18640"
## [193] "18639" "270198" "21664" "22113" "18792" "18793" "56193" "20620"
## [201] "67916" "65112" "108767" "17872" "19219" "19225" "19224" "19267"
## [209] "19262" "19288" "54720" "19696" "19697" "19698" "11852" "192656"
## [217] "75234" "30945" "20229" "20971" "18788" "20725" "18787" "20393"
## [225] "17691" "235344" "104681" "20527" "20525" "227659" "17127" "17126"
## [233] "20621" "12702" "20656" "20698" "74646" "211949" "18412" "20850"
## [241] "20851" "21353" "21354" "21815" "99929" "24088" "21923" "21926"
## [249] "21928" "21929" "21930" "106869" "21942" "21950" "57783" "231130"
## [257] "22029" "211770" "106628" "21807" "22151" "227613" "73710" "22154"
## [265] "22153" "22152" "545486" "67951" "22339" "230734" "229055" "230738"
## [273] "22695"
##
## $HALLMARK_HYPOXIA
## [1] "12778" "11535" "11541" "11540" "11639" "56248"
## [7] "83397" "11674" "79459" "353204" "230163" "11676"
## [13] "11717" "57875" "52231" "12306" "11910" "11977"
## [19] "11979" "117592" "14422" "12032" "12043" "12111"
## [25] "20893" "12177" "100043324" "12209" "12226" "194735"
## [31] "436199" "12227" "76459" "12368" "12389" "19285"
## [37] "109042" "20324" "16007" "14219" "22403" "12452"
## [43] "12575" "12576" "12577" "54371" "60322" "53374"
## [49] "17684" "12831" "12829" "12828" "107581" "53867"
## [55] "71355" "94216" "373864" "12824" "12825" "12826"
## [61] "12827" "12830" "12832" "12836" "12842" "12843"
## [67] "12870" "15203" "13008" "12767" "13179" "13198"
## [73] "74747" "26757" "12933" "22240" "12934" "13527"
## [79] "13528" "19252" "319520" "13615" "13636" "13638"
## [85] "13649" "13869" "13866" "13867" "13806" "433182"
## [91] "13807" "13808" "50527" "74155" "23871" "14042"
## [97] "14066" "70186" "14121" "14120" "14281" "14284"
## [103] "56484" "14387" "69983" "14635" "14433" "100039229"
## [109] "100042427" "100042025" "622339" "14447" "74185" "103988"
## [115] "14538" "93692" "14733" "14734" "14735" "23888"
## [121] "14751" "76238" "14936" "232493" "15116" "110611"
## [127] "211208" "245598" "15211" "15212" "15275" "15277"
## [133] "216019" "212032" "15368" "15417" "15427" "15476"
## [139] "14828" "15481" "15482" "15512" "193740" "15931"
## [145] "15937" "16006" "16009" "16011" "16193" "216136"
## [151] "16322" "384783" "16369" "16367" "57444" "68048"
## [157] "229504" "107817" "16476" "16477" "16478" "105785"
## [163] "66913" "68137" "104263" "108829" "277250" "16572"
## [169] "16573" "16574" "23849" "93691" "75785" "16770"
## [175] "16795" "228366" "16828" "16833" "16948" "17035"
## [181] "17133" "26401" "17319" "17748" "17750" "17859"
## [187] "17886" "17880" "17883" "17882" "17879" "17885"
## [193] "17884" "544791" "71960" "77579" "140781" "668940"
## [199] "17888" "56174" "13004" "17988" "15531" "83398"
## [205] "17423" "83814" "18030" "12457" "14815" "18451"
## [211] "18452" "18484" "18534" "74551" "18591" "228026"
## [217] "236900" "170768" "18640" "18639" "270198" "18641"
## [223] "56421" "18642" "56012" "18648" "18654" "18655"
## [229] "18663" "72157" "226041" "66681" "70974" "18682"
## [235] "18712" "223775" "18770" "18772" "231507" "18793"
## [241] "11520" "108767" "19017" "68507" "327814" "233977"
## [247] "17872" "53412" "54683" "18750" "18751" "18752"
## [253] "19309" "110078" "110095" "19664" "19883" "52187"
## [259] "54170" "20198" "268686" "60406" "50724" "20778"
## [265] "12492" "15529" "20970" "20971" "20342" "20341"
## [271] "18787" "20439" "13358" "20525" "20528" "20527"
## [277] "56485" "435818" "14385" "21366" "51795" "52331"
## [283] "20855" "20856" "54200" "100043194" "76971" "638251"
## [289] "434121" "629203" "434264" "629219" "20859" "21753"
## [295] "236749" "245376" "21809" "21810" "21817" "331046"
## [301] "99929" "83553" "74419" "21881" "56277" "69457"
## [307] "21929" "21983" "21985" "21991" "22022" "216558"
## [313] "22339" "22346" "22359" "16835" "78889" "170750"
## [319] "22695" "30046" "109263"
##
## $HALLMARK_CHOLESTEROL_HOMEOSTASIS
## [1] "11305" "224530" "110460" "60525" "11465" "11461"
## [7] "26876" "69117" "100417514" "11522" "11529" "11532"
## [13] "11658" "11676" "71914" "69787" "11747" "11910"
## [19] "107503" "20239" "54140" "12411" "12527" "12660"
## [25] "12759" "231207" "12387" "16480" "66102" "13121"
## [31] "13360" "13595" "51798" "74155" "66071" "16592"
## [37] "56473" "76267" "60527" "228151" "14104" "50762"
## [43] "230903" "14137" "110196" "104174" "14677" "14678"
## [49] "14679" "69590" "68312" "14862" "14863" "14864"
## [55] "14867" "14866" "14865" "110006" "15357" "208715"
## [61] "15360" "15490" "319554" "16449" "16450" "16835"
## [67] "22359" "16854" "19141" "16956" "16987" "105853"
## [73] "192156" "17855" "18030" "63913" "18194" "68671"
## [79] "236900" "18793" "22038" "18828" "78459" "68603"
## [85] "108767" "19016" "20195" "277089" "235293" "20250"
## [91] "20249" "30049" "329065" "20347" "20775" "20788"
## [97] "20787" "170459" "56389" "73166" "69071" "27279"
## [103] "60599" "228775"
##
## $HALLMARK_MITOTIC_SPINDLE
## [1] "11308" "329165" "11350" "11352" "109934" "110279"
## [7] "60595" "11472" "109711" "11474" "75547" "236266"
## [13] "74018" "68743" "11789" "106952" "212285" "11845"
## [19] "211673" "99371" "76932" "78514" "71544" "71302"
## [25] "544817" "214137" "171207" "117600" "259302" "11855"
## [31] "232906" "192662" "213498" "69632" "16800" "71704"
## [37] "54126" "73341" "68724" "67166" "66615" "20878"
## [43] "12927" "12125" "30948" "11799" "12190" "12235"
## [49] "12345" "108686" "68339" "12442" "12488" "217232"
## [55] "12540" "226751" "217866" "240505" "104445" "104252"
## [61] "56699" "12534" "214444" "229841" "108000" "219103"
## [67] "21461" "21462" "100041352" "12009" "17120" "70799"
## [73] "16328" "74360" "74470" "75786" "76707" "76499"
## [79] "56430" "269713" "81910" "26920" "216846" "54141"
## [85] "104318" "27373" "13043" "19158" "19157" "19159"
## [91] "13383" "23859" "13385" "53310" "218977" "94176"
## [97] "330662" "68813" "238130" "208869" "13518" "13424"
## [103] "110082" "110084" "327954" "110350" "330355" "13411"
## [109] "237806" "69926" "627872" "68097" "13605" "269587"
## [115] "13822" "105988" "22350" "17698" "19684" "223254"
## [121] "227377" "67141" "224014" "14163" "13998" "26382"
## [127] "30938" "192176" "286940" "68794" "14086" "238021"
## [133] "276919" "227753" "20259" "11567" "22349" "15185"
## [139] "56233" "320191" "16151" "77963" "170833" "16319"
## [145] "16443" "20403" "23924" "231912" "74187" "16551"
## [151] "209737" "207607" "16561" "16560" "240641" "110033"
## [157] "71819" "73804" "16563" "16569" "16568" "16570"
## [163] "383592" "16571" "16573" "16582" "16572" "16574"
## [169] "16579" "16593" "16594" "74764" "208628" "268958"
## [175] "73647" "170725" "12333" "12334" "70394" "16798"
## [181] "50523" "16897" "217325" "16906" "16907" "16905"
## [187] "72416" "270058" "26403" "269881" "234878" "338372"
## [193] "13589" "17118" "232944" "226778" "100043566" "100043665"
## [199] "620736" "628475" "381937" "545926" "100043638" "13728"
## [205] "17318" "23947" "68041" "77579" "71960" "17880"
## [211] "17886" "17883" "17882" "17879" "17885" "17884"
## [217] "544791" "140781" "668940" "17888" "71602" "17916"
## [223] "17925" "17973" "17974" "67052" "18003" "18005"
## [229] "56349" "18015" "18080" "18129" "18128" "18132"
## [235] "18131" "101706" "108907" "94190" "18472" "72333"
## [241] "76073" "18536" "18541" "56376" "67399" "208084"
## [247] "18764" "329064" "101497" "18817" "232314" "233406"
## [253] "277360" "109294" "19303" "226407" "227800" "29809"
## [259] "338346" "26934" "19765" "56705" "74334" "217944"
## [265] "192786" "76089" "218397" "114713" "19414" "226525"
## [271] "69601" "240057" "19687" "23912" "214952" "59040"
## [277] "78757" "19877" "19878" "66406" "72776" "53860"
## [283] "71774" "110380" "24061" "140557" "13006" "70099"
## [289] "234214" "20662" "20740" "20739" "20742" "20743"
## [295] "80297" "20741" "237860" "231637" "20853" "232533"
## [301] "106504" "223697" "104027" "381921" "216965" "330177"
## [307] "108903" "21844" "24001" "228012" "24086" "21973"
## [313] "72119" "223435" "545156" "64930" "22137" "22145"
## [319] "22143" "22144" "22147" "22146" "22142" "53857"
## [325] "238463" "56427" "74237" "259279" "233276" "328580"
## [331] "22294" "22330" "83767" "242687" "73178" "22376"
## [337] "22627"
##
## $HALLMARK_WNT_BETA_CATENIN_SIGNALING
## [1] "11491" "12005" "12006" "12444" "12443" "12445" "27373" "104318"
## [9] "12387" "16480" "26965" "13380" "234130" "13388" "54485" "13543"
## [17] "13544" "13542" "27412" "14296" "212398" "14362" "57265" "14369"
## [25] "14370" "14367" "14677" "14678" "14679" "232232" "15182" "15184"
## [33] "56233" "208727" "15213" "15214" "16449" "16450" "14534" "18519"
## [41] "16842" "103806" "433586" "17869" "107771" "20602" "20185" "59287"
## [49] "93960" "18128" "18129" "18132" "18131" "18222" "19015" "19165"
## [57] "19206" "19207" "19664" "27401" "21414" "22059" "22408" "22419"
## [65] "22418" "22420"
##
## $HALLMARK_TGF_BETA_SIGNALING
## [1] "11477" "11789" "94246" "29815" "12156" "12166" "12168" "12550"
## [9] "12560" "12561" "107951" "12577" "12387" "16480" "13805" "14225"
## [17] "14226" "14272" "18550" "18553" "18551" "18552" "433759" "15182"
## [25] "15181" "15258" "15257" "15259" "15901" "15902" "15903" "15980"
## [33] "16477" "16476" "16478" "21847" "320202" "13590" "16997" "268977"
## [41] "108075" "26409" "20602" "20185" "18121" "65112" "19042" "232941"
## [49] "19045" "19047" "434233" "17872" "106572" "19334" "11848" "67653"
## [57] "11853" "18787" "20481" "20482" "20515" "20516" "17125" "17129"
## [65] "55994" "17127" "17126" "17130" "17131" "75788" "66313" "20742"
## [73] "20743" "80297" "20740" "20741" "21803" "21812" "11479" "269275"
## [81] "21815" "21825" "21828" "12845" "21827" "21872" "21873" "27375"
## [89] "94093" "21848" "66105" "73318" "56550" "381534" "97064" "11798"
## [97] "17951" "17952" "17940" "17948"
##
## $HALLMARK_IL6_JAK_STAT3_SIGNALING
## [1] "232345" "17837" "17836" "104681" "232400" "11287" "11479" "269275"
## [9] "21812" "11482" "12018" "12402" "20306" "20292" "20293" "20296"
## [17] "12768" "12770" "12475" "12491" "12494" "12182" "12505" "12527"
## [25] "12804" "57914" "12977" "12981" "12982" "16188" "12984" "12983"
## [33] "16190" "12986" "14825" "20310" "330122" "20309" "15945" "56066"
## [41] "55985" "17329" "21673" "50498" "14102" "79201" "14784" "71520"
## [49] "23897" "15368" "15975" "15979" "15980" "16155" "16161" "16164"
## [57] "16169" "16172" "50905" "16182" "16176" "16177" "16178" "16184"
## [65] "16186" "16193" "16195" "16196" "16199" "16326" "16362" "16391"
## [73] "16401" "104099" "16416" "16476" "16477" "16478" "16847" "16994"
## [81] "17000" "26410" "17874" "18414" "16880" "54635" "56744" "320207"
## [89] "18712" "223775" "18780" "19246" "19247" "19255" "19692" "19693"
## [97] "12703" "12702" "56324" "20846" "20848" "20849" "20847" "21803"
## [105] "24088" "21926" "27279" "21937" "21938" "94185" "54721" "16451"
## [113] "16452"
##
## $HALLMARK_DNA_REPAIR
## [1] "223921" "11486" "11512" "11513" "11514" "224129"
## [7] "104110" "210044" "432530" "56436" "100043022" "76850"
## [13] "236511" "239528" "214150" "11636" "56248" "11639"
## [19] "21681" "56009" "100043227" "100043231" "100043239" "100043292"
## [25] "100861880" "70988" "435615" "100043224" "100043235" "100043247"
## [31] "637578" "100861901" "627488" "667692" "100861891" "11821"
## [37] "54208" "57278" "84004" "27061" "66162" "66653"
## [43] "76025" "218630" "72269" "26370" "98985" "22169"
## [49] "12856" "228410" "13135" "67665" "13194" "107986"
## [55] "94223" "27369" "110074" "59022" "68969" "20918"
## [61] "13716" "27224" "13870" "70333" "13871" "13872"
## [67] "50505" "22592" "71991" "14156" "105446" "23918"
## [73] "625249" "54722" "235459" "229906" "98053" "14884"
## [79] "209357" "66467" "70239" "14923" "15163" "15452"
## [85] "23917" "100042069" "16434" "16881" "70456" "268395"
## [91] "18100" "68092" "58202" "57314" "27632" "74164"
## [97] "18102" "79059" "56520" "230103" "18160" "50773"
## [103] "103850" "107569" "68106" "68219" "74167" "18538"
## [109] "18540" "18578" "238871" "110385" "18577" "18588"
## [115] "78600" "667034" "18950" "18968" "18969" "18970"
## [121] "18971" "67967" "69745" "105948585" "66979" "80905"
## [127] "56626" "20016" "20018" "66136" "20020" "20021"
## [133] "69241" "66420" "69833" "67710" "245841" "69920"
## [139] "20022" "17749" "74414" "69870" "107939" "19075"
## [145] "19361" "19365" "66679" "56044" "56438" "100043674"
## [151] "19823" "19714" "19718" "69263" "106344" "72151"
## [157] "67897" "19891" "68240" "382985" "20135" "66406"
## [163] "53378" "53421" "57743" "75062" "17129" "55994"
## [169] "227644" "330959" "67996" "57317" "20833" "20908"
## [175] "20922" "100041294" "20924" "20930" "24075" "216185"
## [181] "66464" "99730" "21341" "21343" "108143" "102216272"
## [187] "21357" "57813" "56334" "100862175" "22059" "22088"
## [193] "22171" "22247" "68134" "236733" "14479" "22258"
## [199] "66914" "72749" "330192" "194309" "22591" "69020"
## [205] "52696"
##
## $HALLMARK_G2M_CHECKPOINT
## [1] "11350" "11352" "11702" "100041585" "238247" "94246"
## [7] "107503" "22589" "20878" "20877" "20871" "12021"
## [13] "12051" "11799" "12190" "12235" "12237" "26885"
## [19] "12412" "12428" "12442" "12443" "12444" "12445"
## [25] "12449" "12455" "107995" "12530" "12531" "217232"
## [31] "12544" "23834" "12545" "12534" "12567" "12576"
## [37] "12580" "72391" "12615" "229841" "108000" "27221"
## [43] "12649" "234852" "54124" "624855" "66197" "13018"
## [49] "26965" "26554" "99375" "72584" "75717" "27214"
## [55] "68278" "53817" "245474" "13405" "22288" "13497"
## [61] "13486" "21915" "13555" "242705" "13557" "104394"
## [67] "13559" "13640" "13645" "105988" "14030" "26909"
## [73] "14056" "14055" "14088" "67141" "71375" "27041"
## [79] "272551" "14852" "14853" "15270" "319173" "621893"
## [85] "319176" "319191" "319162" "232440" "319171" "15267"
## [91] "319192" "319163" "319164" "319165" "319166" "319167"
## [97] "319168" "319169" "319170" "665433" "319172" "51788"
## [103] "77605" "319184" "68024" "319179" "319180" "319181"
## [109] "319183" "319185" "319186" "319187" "319188" "319189"
## [115] "78303" "319182" "319190" "665596" "665622" "15251"
## [121] "13819" "15260" "15361" "111241" "15364" "15354"
## [127] "619829" "15331" "100042405" "625514" "115488195" "15366"
## [133] "71653" "11991" "51810" "209448" "15481" "15482"
## [139] "193740" "14828" "15512" "15511" "15574" "210554"
## [145] "16201" "20744" "16319" "15374" "23924" "231912"
## [151] "16551" "209737" "207607" "240641" "110033" "71819"
## [157] "73804" "16563" "16571" "16573" "16582" "16572"
## [163] "16574" "67956" "76464" "16647" "100043906" "16211"
## [169] "98386" "16882" "16906" "16907" "16905" "56150"
## [175] "65964" "26416" "19094" "17118" "17216" "17215"
## [181] "17218" "17219" "17268" "17536" "17345" "17420"
## [187] "17750" "17748" "17765" "17865" "17864" "17869"
## [193] "107771" "50927" "17975" "67052" "18005" "70769"
## [199] "18129" "18128" "18132" "18131" "107823" "18193"
## [205] "234135" "101706" "18141" "78482" "269966" "108907"
## [211] "18263" "18286" "26429" "56452" "18472" "52033"
## [217] "100710" "71521" "18817" "20873" "18854" "18969"
## [223] "18973" "77782" "233406" "19076" "27374" "19134"
## [229] "30939" "19290" "19291" "26934" "19357" "19359"
## [235] "19366" "226525" "69601" "240057" "19650" "19651"
## [241] "56275" "102902673" "19891" "73086" "56613" "60406"
## [247] "50724" "71514" "20496" "20495" "20497" "105727"
## [253] "11987" "11989" "11988" "20539" "17127" "17126"
## [259] "20588" "68094" "24061" "140557" "14211" "70099"
## [265] "20641" "20775" "110809" "14105" "20382" "245492"
## [271] "268996" "20842" "20843" "50878" "20460" "16765"
## [277] "20937" "56403" "74326" "21335" "210106" "21781"
## [283] "21803" "21887" "21888" "21885" "21917" "212999"
## [289] "238799" "21969" "72960" "21973" "72119" "20462"
## [295] "22036" "78733" "22137" "68612" "77891" "80914"
## [301] "22245" "19704" "22427" "103573" "231386"
##
## $HALLMARK_APOPTOSIS
## [1] "11518" "27360" "11519" "72168" "11732" "16952"
## [7] "11820" "11910" "54140" "12028" "27061" "12042"
## [13] "12048" "12049" "12125" "12050" "12111" "12122"
## [19] "12124" "11796" "11797" "17951" "17952" "17940"
## [25] "17948" "171543" "12156" "12177" "100043324" "12189"
## [31] "12227" "436199" "194735" "12226" "12228" "12362"
## [37] "12366" "12367" "12363" "12368" "12369" "12370"
## [43] "12371" "12389" "12427" "12443" "12444" "12445"
## [49] "12475" "12481" "12494" "12182" "12505" "12515"
## [55] "12531" "12566" "12575" "12576" "12633" "12759"
## [61] "12914" "328572" "107869" "12387" "16480" "74256"
## [67] "223453" "65111" "13179" "13198" "13347" "66593"
## [73] "15502" "100037258" "74006" "99586" "13595" "13655"
## [79] "13730" "13807" "433182" "13806" "13808" "13866"
## [85] "13869" "13649" "13867" "13874" "225363" "14061"
## [91] "14062" "14102" "79201" "14103" "14149" "235180"
## [97] "13197" "23882" "17873" "14528" "14676" "14775"
## [103] "14778" "75512" "14780" "625249" "227753" "20259"
## [109] "11567" "22349" "14782" "14863" "14864" "14867"
## [115] "14862" "14865" "14866" "68312" "14919" "245650"
## [121] "14958" "15234" "97165" "15368" "15507" "15937"
## [127] "66141" "68713" "80876" "74482" "213002" "69147"
## [133] "73835" "15977" "15979" "16004" "16012" "16173"
## [139] "16175" "16176" "16193" "16362" "57444" "68048"
## [145] "229504" "16476" "16477" "16478" "16668" "16842"
## [151] "16854" "16905" "16906" "16907" "17022" "228355"
## [157] "17210" "17314" "17390" "18003" "380684" "18040"
## [163] "18479" "18481" "224105" "18569" "18596" "18595"
## [169] "18611" "18791" "18796" "18797" "18798" "18795"
## [175] "229791" "58801" "225849" "26932" "19058" "19059"
## [181] "19063" "18646" "19164" "19165" "14083" "19401"
## [187] "218772" "19411" "19697" "67442" "11852" "214952"
## [193] "59040" "24014" "19877" "19878" "20229" "20230"
## [199] "235293" "20515" "20516" "17131" "17130" "20655"
## [205] "20656" "20740" "20739" "18412" "21354" "21808"
## [211] "21814" "21857" "21858" "21859" "21926" "27279"
## [217] "22035" "21973" "12257" "56338" "22334" "22390"
## [223] "11798"
##
## $HALLMARK_NOTCH_SIGNALING
## [1] "226548" "109689" "216869" "12443" "12444" "12445"
## [7] "26965" "13388" "54485" "14357" "207521" "74198"
## [13] "103583" "12234" "14362" "57265" "14369" "14367"
## [19] "14370" "15205" "56198" "15214" "16449" "16450"
## [25] "14534" "18519" "16848" "17305" "19719" "270118"
## [31] "18128" "18129" "18132" "18131" "19015" "18750"
## [37] "18751" "18752" "19165" "66340" "56438" "100043674"
## [43] "19823" "60406" "50724" "21402" "54613" "21416"
## [49] "21415" "22413" "22418" "22419"
##
## $HALLMARK_ADIPOGENESIS
## [1] "11303" "11304" "27403" "268379" "74591" "11305"
## [7] "74610" "52538" "11363" "11364" "11409" "104112"
## [13] "11429" "11430" "11512" "11513" "11514" "224129"
## [19] "104110" "210044" "432530" "246747" "11450" "68465"
## [25] "28169" "68262" "26926" "11637" "11669" "72535"
## [31] "19378" "26358" "11668" "56847" "11674" "79459"
## [37] "353204" "11600" "57875" "11804" "11816" "11836"
## [43] "109880" "110157" "11861" "56298" "73991" "109168"
## [49] "11933" "28080" "116848" "12039" "94044" "12053"
## [55] "12266" "12268" "15139" "12359" "19285" "20324"
## [61] "109042" "12452" "12476" "68498" "66205" "12491"
## [67] "12580" "103172" "12675" "16150" "12683" "14311"
## [73] "69574" "66588" "12819" "12822" "12826" "12829"
## [79] "12828" "107581" "53867" "71355" "94216" "373864"
## [85] "12824" "12825" "12827" "12830" "12831" "12832"
## [91] "12836" "12842" "12843" "230027" "52064" "67914"
## [97] "12861" "66142" "78174" "12868" "12896" "12908"
## [103] "12647" "12974" "71832" "66445" "13120" "13119"
## [109] "81906" "666168" "13118" "230639" "435802" "100040843"
## [115] "13117" "277753" "13171" "13202" "67460" "13350"
## [121] "13360" "66375" "209183" "216820" "235339" "13382"
## [127] "27362" "66148" "67171" "51798" "93747" "232089"
## [133] "170439" "18606" "209558" "18605" "13850" "26379"
## [139] "23943" "110826" "11770" "18857" "21884" "14085"
## [145] "14366" "23881" "13197" "23882" "74185" "66092"
## [151] "14732" "102247" "231510" "14571" "268566" "14778"
## [157] "75512" "14780" "625249" "17713" "15107" "227095"
## [163] "80888" "15926" "269951" "67834" "15929" "243996"
## [169] "15979" "76614" "16404" "16400" "209378" "16443"
## [175] "20403" "67767" "16775" "16776" "16774" "16846"
## [181] "16880" "18414" "16890" "14792" "16956" "17001"
## [187] "225028" "26412" "26411" "399510" "72039" "17448"
## [193] "17436" "109264" "107029" "23945" "66447" "108958"
## [199] "77037" "27395" "67247" "66112" "56428" "107589"
## [205] "109019" "69917" "68202" "70316" "102634451" "66916"
## [211] "68349" "69721" "18107" "18108" "27047" "18405"
## [217] "18406" "18407" "18569" "18618" "56273" "170768"
## [223] "18640" "18639" "270198" "18641" "72157" "226041"
## [229] "102693" "16922" "223775" "18712" "11520" "18984"
## [235] "19016" "19043" "232941" "108954" "11757" "50907"
## [241] "69956" "19218" "110391" "19376" "13476" "70335"
## [247] "57264" "57263" "67442" "66878" "67809" "29864"
## [253] "68750" "20168" "68653" "20778" "12492" "20280"
## [259] "67680" "66052" "20509" "116914" "20514" "13358"
## [265] "27376" "26457" "26569" "330064" "217430" "20618"
## [271] "20655" "20411" "268301" "13602" "59010" "16651"
## [277] "20850" "20851" "13830" "229277" "56451" "20887"
## [283] "53315" "57429" "57430" "215895" "21351" "21353"
## [289] "21881" "74419" "83553" "22057" "22117" "246221"
## [295] "22190" "22187" "56085" "54609" "94232" "22245"
## [301] "80914" "22228" "66152" "66594" "22273" "22272"
## [307] "22340" "22628" "22629"
##
## $HALLMARK_ESTROGEN_RESPONSE_EARLY
## [1] "268860" "27410" "381072" "268379" "67928" "320631"
## [7] "233810" "54608" "226251" "231148" "319713" "432530"
## [13] "11514" "11512" "11515" "27360" "11518" "11519"
## [19] "17355" "93736" "11640" "67689" "73458" "621603"
## [25] "23802" "71790" "11828" "11835" "11839" "56350"
## [31] "142688" "14595" "12017" "58208" "14025" "12043"
## [37] "20893" "233016" "76459" "12308" "12311" "54598"
## [43] "76025" "12398" "12395" "12396" "22403" "12443"
## [49] "12444" "12445" "12505" "12614" "53883" "107934"
## [55] "212862" "99712" "12700" "53624" "69454" "20315"
## [61] "232174" "546726" "97998" "13360" "71412" "28200"
## [67] "20148" "50768" "243362" "236920" "67117" "13655"
## [73] "13709" "13710" "54326" "68801" "71946" "77411"
## [79] "207920" "98952" "223254" "227377" "14104" "69169"
## [85] "14137" "14200" "14228" "14229" "286940" "192176"
## [91] "68794" "14281" "17300" "14234" "14302" "14389"
## [97] "14585" "14609" "414089" "11605" "268527" "381157"
## [103] "15205" "15460" "80888" "16001" "16010" "50905"
## [109] "16195" "16324" "16323" "101490" "229504" "68048"
## [115] "57444" "217837" "16452" "54721" "16451" "71529"
## [121] "241769" "16529" "193796" "76804" "230674" "21847"
## [127] "16600" "16598" "69540" "16663" "16665" "16668"
## [133] "16669" "16691" "16763" "16206" "269473" "320398"
## [139] "17762" "328329" "56527" "17776" "76199" "327987"
## [145] "23989" "243864" "266815" "75007" "171531" "77015"
## [151] "223726" "381269" "17695" "17829" "17863" "18432"
## [157] "17864" "17865" "17869" "107771" "226101" "26903"
## [163] "83762" "78914" "78286" "260315" "215690" "17965"
## [169] "20602" "20185" "18166" "268903" "56488" "237082"
## [175] "56177" "229759" "99543" "13603" "107586" "18426"
## [181] "18442" "57385" "23972" "23971" "53318" "59020"
## [187] "18631" "18667" "225845" "58801" "27205" "105675"
## [193] "76453" "64292" "19329" "106572" "19334" "268480"
## [199] "19401" "218772" "19411" "19419" "240168" "225182"
## [205] "52250" "225362" "19713" "66270" "73296" "11854"
## [211] "20112" "110651" "20111" "67071" "107094" "20778"
## [217] "12492" "20276" "67815" "103655" "380683" "20347"
## [223] "55948" "24056" "20439" "20501" "116914" "20509"
## [229] "20510" "55963" "20520" "56517" "30805" "94249"
## [235] "238384" "13521" "231583" "26458" "225579" "20525"
## [241] "20528" "20527" "224674" "56857" "106957" "11988"
## [247] "11989" "11987" "20539" "26941" "65962" "69226"
## [253] "20675" "20681" "20682" "20856" "54200" "100043194"
## [259] "76971" "638251" "434121" "629203" "434264" "629219"
## [265] "20859" "225115" "319613" "20972" "171180" "74694"
## [271] "21420" "21784" "21786" "228839" "21817" "331046"
## [277] "207596" "229595" "21844" "24001" "99929" "27375"
## [283] "209497" "140765" "50528" "22057" "21983" "21987"
## [289] "244152" "230603" "73710" "22151" "22154" "22153"
## [295] "227613" "22152" "545486" "67951" "22234" "22248"
## [301] "106840" "22393" "211652" "52357" "22433" "22673"
##
## $HALLMARK_ESTROGEN_RESPONSE_LATE
## [1] "27410" "381072" "268379" "67928" "320631" "233810"
## [7] "54608" "93732" "27360" "11518" "11519" "17355"
## [13] "93736" "23795" "403205" "11671" "67689" "73458"
## [19] "621603" "23802" "71790" "11839" "56350" "17172"
## [25] "11898" "381290" "67972" "11941" "320707" "12017"
## [31] "53314" "12043" "233016" "12228" "76459" "12349"
## [37] "56808" "12293" "12311" "54598" "12389" "22403"
## [43] "12427" "12443" "12444" "12445" "12505" "12527"
## [49] "107995" "23834" "12550" "12560" "12561" "53883"
## [55] "12614" "107934" "212862" "99712" "68947" "71367"
## [61] "12700" "12709" "12715" "69454" "12864" "102640946"
## [67] "12876" "20315" "57266" "232174" "546726" "64385"
## [73] "106648" "631304" "72054" "70101" "170716" "677156"
## [79] "320997" "666168" "208285" "435802" "100040843" "13117"
## [85] "67880" "12409" "13360" "71412" "28200" "71228"
## [91] "13418" "30045" "13537" "67117" "13655" "68801"
## [97] "54326" "13731" "110826" "16592" "98952" "223254"
## [103] "227377" "14137" "14184" "14228" "14229" "286940"
## [109] "192176" "68794" "14281" "17300" "14234" "14302"
## [115] "14419" "74246" "22122" "272551" "14620" "11605"
## [121] "76854" "15360" "26557" "15452" "15460" "18415"
## [127] "80888" "15902" "269951" "15926" "16010" "209268"
## [133] "50905" "16195" "114663" "57444" "68048" "229504"
## [139] "217837" "16451" "54721" "16452" "16529" "19348"
## [145] "16600" "16598" "69540" "56538" "16663" "16665"
## [151] "16669" "16782" "226519" "16795" "228366" "217325"
## [157] "16897" "54135" "17002" "71775" "22041" "26415"
## [163] "29857" "17762" "17242" "17294" "56335" "74407"
## [169] "243864" "266815" "17434" "17863" "226101" "26903"
## [175] "83762" "17937" "17965" "20602" "20185" "56183"
## [181] "18166" "268903" "56488" "237082" "56177" "229759"
## [187] "13603" "107586" "18426" "23972" "23971" "18546"
## [193] "18569" "53318" "59020" "64058" "18667" "56460"
## [199] "225845" "56096" "20873" "235611" "140571" "18846"
## [205] "18845" "18844" "140570" "67784" "243743" "105675"
## [211] "19088" "19087" "19116" "76453" "19218" "64292"
## [217] "15170" "106572" "19334" "54189" "268480" "225182"
## [223] "19713" "69724" "20112" "110651" "20111" "67071"
## [229] "20202" "545541" "20778" "12492" "20276" "56788"
## [235] "18690" "20347" "20704" "20703" "20701" "20700"
## [241] "20702" "68348" "194604" "16625" "20716" "271047"
## [247] "20717" "238393" "20714" "20715" "74069" "628900"
## [253] "238395" "268591" "55948" "20393" "20439" "20501"
## [259] "55963" "20520" "56517" "30805" "94249" "238384"
## [265] "13521" "231583" "26458" "225579" "63959" "56017"
## [271] "20539" "26941" "65962" "71982" "20322" "20675"
## [277] "20681" "20682" "19143" "20446" "20460" "54200"
## [283] "100043194" "76971" "638251" "434121" "629203" "434264"
## [289] "629219" "20859" "21420" "21784" "21786" "21789"
## [295] "21823" "21844" "24001" "27375" "140765" "50528"
## [301] "21924" "22057" "21973" "21983" "21987" "17229"
## [307] "100503895" "72169" "66109" "22117" "246221" "22235"
## [313] "22249" "208898" "22393" "22433" "74335" "22695"
##
## $HALLMARK_ANDROGEN_RESPONSE
## [1] "239273" "54608" "74205" "50790" "109711" "60595"
## [7] "11474" "11472" "11504" "23794" "30806" "101401"
## [13] "235130" "223838" "56436" "100043022" "83397" "11651"
## [19] "11652" "23797" "56847" "19378" "26358" "11668"
## [25] "72535" "11669" "11732" "66884" "71371" "12007"
## [31] "12010" "14595" "12167" "12166" "207565" "55984"
## [37] "12443" "12444" "12445" "218294" "12571" "72155"
## [43] "13167" "74754" "27362" "13714" "192657" "68801"
## [49] "54326" "76267" "60527" "56473" "228151" "14229"
## [55] "14679" "14677" "14678" "333433" "14555" "14782"
## [61] "60596" "14958" "73998" "15357" "208715" "15360"
## [67] "26557" "15446" "66065" "319554" "234515" "269180"
## [73] "231070" "544963" "404710" "16410" "241226" "16402"
## [79] "16612" "16619" "16615" "16624" "16623" "16622"
## [85] "16617" "16616" "16613" "13646" "13648" "18048"
## [91] "18050" "16618" "13647" "16669" "16691" "16880"
## [97] "18414" "70361" "235416" "17132" "16658" "17152"
## [103] "56542" "17761" "17289" "26362" "67268" "67938"
## [109] "27057" "17988" "59007" "18095" "18813" "56376"
## [115] "67399" "109785" "56469" "17344" "229615" "19012"
## [121] "65112" "19229" "24000" "19250" "19341" "19342"
## [127] "110651" "20111" "67071" "20112" "107094" "20229"
## [133] "20250" "20249" "30049" "329065" "69608" "218811"
## [139] "20363" "20393" "13521" "231583" "67760" "20603"
## [145] "671878" "20322" "76687" "76219" "76976" "30051"
## [151] "20807" "66384" "22184" "22183" "117167" "53416"
## [157] "108737" "71817" "77975" "50528" "140765" "106869"
## [163] "21985" "21807" "107652" "22196" "56228" "30960"
## [169] "22596" "14375" "229055" "328365" "52915"
##
## $HALLMARK_MYOGENESIS
## [1] "226251" "231148" "319713" "11423" "14081" "433256"
## [7] "216739" "11459" "11468" "11464" "11475" "238880"
## [13] "11461" "11472" "60595" "109711" "11474" "11489"
## [19] "11492" "11515" "11568" "55987" "56264" "77559"
## [25] "11603" "11636" "11652" "23797" "56642" "107765"
## [31] "78321" "23796" "11815" "11820" "11937" "11938"
## [37] "53313" "54411" "12017" "12062" "20893" "30948"
## [43] "58226" "12291" "239556" "12299" "12323" "108058"
## [49] "12325" "12322" "12372" "12373" "12391" "12491"
## [55] "12554" "12575" "11537" "11435" "11443" "11449"
## [61] "12709" "12715" "76722" "12716" "12759" "71994"
## [67] "12797" "12819" "12822" "12842" "12829" "12828"
## [73] "107581" "53867" "71355" "94216" "373864" "12824"
## [79] "12825" "12826" "12827" "12830" "12831" "12832"
## [85] "12836" "12843" "74320" "12834" "12833" "12835"
## [91] "68553" "245026" "12862" "12865" "12908" "12647"
## [97] "12955" "13009" "13019" "13143" "13144" "76954"
## [103] "209773" "13346" "19132" "22352" "13405" "22288"
## [109] "13497" "13400" "13527" "13528" "13644" "13682"
## [115] "13681" "53975" "13808" "13845" "270190" "13844"
## [121] "13846" "13835" "13840" "13842" "13848" "13841"
## [127] "13836" "13838" "13837" "13839" "13867" "13869"
## [133] "13649" "13866" "14077" "12140" "14074" "110196"
## [139] "14173" "14199" "14202" "14226" "14248" "54601"
## [145] "14313" "56188" "14387" "69983" "93739" "17873"
## [151] "14613" "14681" "14778" "75512" "14780" "227753"
## [157] "20259" "11567" "22349" "15200" "15184" "56233"
## [163] "208727" "15464" "69253" "80888" "15982" "15983"
## [169] "16000" "16009" "16011" "29817" "16404" "16400"
## [175] "16412" "192897" "16419" "16416" "16420" "16510"
## [181] "238271" "16511" "170738" "192775" "16582" "16581"
## [187] "12224" "16773" "16795" "228366" "24131" "14245"
## [193] "64899" "16985" "29857" "26415" "100732" "17189"
## [199] "17258" "17260" "17261" "17259" "17532" "17868"
## [205] "233199" "109272" "53311" "68753" "17878" "17879"
## [211] "17884" "17880" "17886" "17883" "17882" "17885"
## [217] "544791" "71960" "77579" "140781" "668940" "17888"
## [223] "17901" "17906" "17907" "17897" "17896" "216459"
## [229] "17904" "17898" "107589" "17913" "17928" "17929"
## [235] "17930" "242702" "59011" "78286" "260315" "215690"
## [241] "17967" "17968" "18125" "18126" "18127" "18128"
## [247] "18129" "18104" "18105" "77090" "18563" "83679"
## [253] "75216" "67399" "18642" "56421" "18641" "56012"
## [259] "18648" "18693" "18767" "140570" "18846" "18845"
## [265] "18844" "235611" "140571" "67784" "243743" "68507"
## [271] "327814" "233977" "53412" "19122" "19165" "19223"
## [277] "19245" "19293" "19309" "110078" "110095" "19645"
## [283] "52250" "225362" "19769" "19762" "20190" "20192"
## [289] "20191" "20250" "20249" "30049" "329065" "30953"
## [295] "100505386" "20391" "24052" "24053" "244431" "20399"
## [301] "50795" "212531" "56726" "64383" "102857" "66402"
## [307] "29856" "276829" "20657" "20411" "20410" "20692"
## [313] "30051" "11790" "20698" "20740" "20739" "16651"
## [319] "20856" "225115" "20973" "21345" "21393" "21679"
## [325] "21676" "21803" "21924" "21925" "21952" "21953"
## [331] "21954" "21955" "21956" "21957" "21987" "22004"
## [337] "59069" "621054" "22084" "22354" "97064"
##
## $HALLMARK_PROTEIN_SECRETION
## [1] "11303" "11304" "27403" "268379" "74591" "11305"
## [7] "11487" "66471" "68981" "11765" "71770" "11764"
## [13] "11773" "232910" "11774" "11775" "11777" "213827"
## [19] "11840" "11841" "66251" "211673" "99371" "99889"
## [25] "11928" "98660" "232975" "11944" "27222" "192113"
## [31] "110935" "11966" "108664" "11977" "11979" "12068"
## [37] "12176" "12390" "12512" "12725" "12727" "211286"
## [43] "12757" "74325" "67300" "76332" "70349" "50797"
## [49] "59042" "13032" "74006" "320615" "70028" "13518"
## [55] "13649" "13869" "13866" "13867" "66366" "14420"
## [61] "107338" "11605" "14683" "14680" "54214" "56494"
## [67] "15893" "16004" "16561" "16560" "16668" "16784"
## [73] "70361" "235416" "17113" "26413" "26417" "67074"
## [79] "108124" "17957" "108123" "320634" "16330" "18484"
## [85] "19063" "68365" "19334" "106572" "59021" "76338"
## [91] "271457" "56382" "67830" "110651" "20111" "67071"
## [97] "20112" "107767" "24045" "69938" "20333" "69608"
## [103] "218811" "69162" "208449" "20404" "20405" "20408"
## [109] "20619" "67804" "20655" "16651" "20844" "100226"
## [115] "228960" "53331" "68581" "100042773" "56334" "100862175"
## [121] "72736" "71943" "21985" "22088" "216350" "56041"
## [127] "22319" "53330" "20955" "22365" "20479" "116733"
## [133] "77929" "56418" "26951"
##
## $HALLMARK_INTERFERON_ALPHA_RESPONSE
## [1] "56417" "12010" "74481" "69550" "317677" "50908"
## [7] "12362" "12370" "54199" "16423" "16149" "22169"
## [13] "74157" "12799" "12977" "15945" "56066" "234311"
## [19] "80861" "19106" "13709" "108670" "14469" "14468"
## [25] "229900" "55932" "236573" "76074" "100702" "634650"
## [31] "626578" "17472" "66355" "229003" "67138" "73998"
## [37] "15013" "15040" "14972" "14990" "15006" "14964"
## [43] "14991" "15007" "15018" "630294" "14963" "14985"
## [49] "110696" "333715" "224753" "224754" "399549" "667977"
## [55] "100529082" "240095" "15015" "110557" "15043" "15039"
## [61] "224761" "14997" "224756" "15024" "14980" "15019"
## [67] "110558" "52668" "217845" "76933" "65972" "70110"
## [73] "99899" "15061" "71586" "15958" "15959" "667370"
## [79] "68713" "66141" "74482" "80876" "213002" "69147"
## [85] "73835" "16168" "16190" "16196" "16362" "16363"
## [91] "54123" "16391" "100038882" "57444" "68048" "229504"
## [97] "239739" "66988" "19039" "67168" "17069" "17454"
## [103] "73711" "17858" "17857" "211329" "170719" "64685"
## [109] "53312" "23960" "246730" "243262" "100535" "114643"
## [115] "246729" "231699" "23961" "231655" "23962" "72075"
## [121] "243771" "547253" "80285" "22038" "18828" "78459"
## [127] "71701" "19124" "19167" "16913" "16912" "19186"
## [133] "19188" "621823" "192656" "268749" "58185" "67775"
## [139] "209086" "20343" "246696" "109032" "434484" "20684"
## [145] "624083" "101056250" "102638047" "102633783" "100041057" "671917"
## [151] "546061" "677525" "20847" "21354" "100121" "212943"
## [157] "74645" "68487" "231712" "74735" "20821" "217069"
## [163] "67606" "22670" "224762" "667823" "319236" "94088"
## [169] "209387" "20128" "76681" "94094" "434218" "434219"
## [175] "56338" "74153" "22201" "56791" "24110" "22375"
##
## $HALLMARK_INTERFERON_GAMMA_RESPONSE
## [1] "56417" "71939" "71371" "11861" "319974" "12010"
## [7] "242248" "74481" "12183" "69550" "12226" "194735"
## [13] "436199" "12227" "667277" "50909" "66686" "317677"
## [19] "50908" "12362" "12367" "12363" "12369" "12370"
## [25] "20293" "20296" "20292" "20306" "20304" "60533"
## [31] "12494" "12182" "21939" "12515" "16149" "12524"
## [37] "12575" "14962" "12628" "214403" "545366" "12265"
## [43] "14747" "22169" "74157" "12984" "12983" "16190"
## [49] "15945" "56066" "17329" "230073" "234311" "80861"
## [55] "19106" "66892" "108670" "14102" "79201" "14129"
## [61] "14190" "14293" "14289" "14294" "14291" "14290"
## [67] "321020" "55932" "229900" "236573" "76074" "100702"
## [73] "634650" "626578" "17472" "14528" "110168" "14938"
## [79] "229003" "67138" "73998" "15251" "13819" "15006"
## [85] "15013" "14972" "15040" "14990" "15007" "15018"
## [91] "14964" "14991" "14963" "15015" "110557" "630294"
## [97] "667977" "240095" "15043" "14985" "110696" "333715"
## [103] "224753" "224754" "399549" "100529082" "15039" "224756"
## [109] "15024" "224761" "14997" "69717" "14980" "15019"
## [115] "110558" "14998" "14960" "381091" "14969" "15894"
## [121] "15898" "15930" "52668" "217845" "76933" "65972"
## [127] "70110" "99899" "15061" "71586" "667373" "112419"
## [133] "15957" "15958" "15959" "667370" "80876" "66141"
## [139] "68713" "74482" "213002" "69147" "73835" "15976"
## [145] "16154" "16168" "16169" "16068" "16185" "16193"
## [151] "16196" "16362" "16363" "16364" "27056" "54123"
## [157] "15900" "16391" "100038882" "57444" "68048" "229504"
## [163] "66307" "16421" "16412" "16414" "16452" "54721"
## [169] "16451" "27007" "381816" "66988" "50523" "16798"
## [175] "16822" "19039" "17069" "70082" "72925" "71664"
## [181] "70152" "380975" "668178" "554292" "17750" "17748"
## [187] "17768" "78388" "17858" "17857" "17874" "59027"
## [193] "17979" "17978" "18033" "18034" "18035" "434341"
## [199] "64685" "107607" "71805" "246728" "246727" "231655"
## [205] "23962" "72075" "140795" "243771" "547253" "18578"
## [211] "238871" "110385" "18577" "67245" "93834" "56421"
## [217] "18641" "18642" "18712" "223775" "18783" "22038"
## [223] "18828" "78459" "18854" "667034" "18950" "71701"
## [229] "19166" "19167" "19171" "26445" "16913" "16912"
## [235] "19186" "19188" "621823" "19225" "19224" "19246"
## [241] "19255" "15170" "192786" "76089" "24105" "19766"
## [247] "192656" "672511" "268749" "58185" "67775" "209086"
## [253] "56045" "209588" "58210" "20344" "12258" "75345"
## [259] "246696" "12703" "12702" "20656" "109032" "434484"
## [265] "20684" "624083" "101056250" "102638047" "102633783" "100041057"
## [271] "671917" "546061" "677525" "66552" "237958" "73218"
## [277] "109552" "16651" "20454" "20452" "20846" "20848"
## [283] "20849" "20847" "21354" "21356" "100121" "21928"
## [289] "21929" "21930" "22035" "30934" "30931" "231712"
## [295] "74735" "20821" "217069" "67606" "22670" "224762"
## [301] "56338" "56791" "22271" "76654" "24110" "53620"
## [307] "22320" "22329" "22375" "327959" "16963" "58203"
## [313] "98999"
##
## $HALLMARK_APICAL_JUNCTION
## [1] "11459" "11468" "11464" "11475" "238880" "11461"
## [7] "11465" "109711" "60595" "11474" "11472" "11490"
## [13] "23792" "11488" "11502" "23794" "11504" "30806"
## [19] "235130" "11548" "11550" "11652" "23797" "11688"
## [25] "11686" "23801" "11689" "11705" "229715" "105827"
## [31] "73341" "54126" "76709" "232975" "27222" "192113"
## [37] "11928" "98660" "11944" "14595" "108100" "12153"
## [43] "21892" "24087" "239857" "57278" "94332" "12308"
## [49] "12331" "69165" "170779" "170780" "170786" "170776"
## [55] "69142" "70192" "60533" "102657" "12490" "12524"
## [61] "673094" "12550" "12560" "12561" "12552" "12564"
## [67] "12565" "12563" "320873" "215654" "104010" "23836"
## [73] "239096" "241201" "12555" "227485" "264064" "78334"
## [79] "386463" "99151" "234407" "269132" "18417" "56173"
## [85] "60363" "56492" "242653" "12740" "57255" "12739"
## [91] "12741" "54419" "53624" "54420" "239931" "56863"
## [97] "12798" "12805" "21367" "269784" "53870" "244682"
## [103] "18488" "107581" "12829" "12828" "53867" "71355"
## [109] "94216" "373864" "12824" "12825" "12826" "12827"
## [115] "12830" "12831" "12832" "12836" "12842" "12843"
## [121] "12821" "12839" "12840" "12841" "12908" "12647"
## [127] "224912" "12385" "12388" "20312" "69192" "13204"
## [133] "217207" "64340" "13383" "23859" "13385" "53310"
## [139] "13406" "13505" "13507" "13506" "13649" "13869"
## [145] "13866" "13867" "13822" "269587" "14026" "20336"
## [151] "14118" "14119" "68794" "286940" "192176" "14086"
## [157] "238021" "23880" "14431" "14677" "14678" "14679"
## [163] "14786" "98053" "15107" "15461" "15894" "15898"
## [169] "15896" "78369" "16151" "16332" "16331" "231070"
## [175] "16367" "384783" "16369" "213119" "319480" "109700"
## [181] "16398" "16400" "104099" "16412" "192897" "83964"
## [187] "16480" "12387" "16511" "170738" "192775" "16660"
## [193] "16671" "71888" "16672" "16774" "16780" "16782"
## [199] "226519" "244864" "100017" "65970" "17123" "65964"
## [205] "26412" "225028" "26411" "399510" "19094" "26416"
## [211] "26415" "29857" "17242" "17390" "17395" "56217"
## [217] "68481" "14012" "17698" "19684" "22350" "192156"
## [223] "77579" "71960" "17880" "17886" "17883" "17882"
## [229] "17879" "17885" "17884" "544791" "140781" "668940"
## [235] "17888" "67938" "67268" "98932" "58235" "19294"
## [241] "52118" "58998" "71740" "320840" "268890" "68810"
## [247] "18015" "18016" "269116" "216856" "192167" "245537"
## [253] "18175" "17996" "18188" "18190" "18191" "18189"
## [259] "93737" "58220" "57342" "170736" "18515" "18516"
## [265] "18514" "75599" "211712" "54216" "245578" "170761"
## [271] "18613" "18643" "18645" "74769" "18707" "18706"
## [277] "18710" "18763" "18803" "234779" "269643" "52432"
## [283] "71978" "72930" "19211" "14083" "19264" "19354"
## [289] "170758" "218397" "23912" "20130" "20163" "20970"
## [295] "20392" "20416" "110380" "19261" "668101" "100038947"
## [301] "320832" "381484" "751864" "54353" "22784" "20563"
## [307] "20564" "20562" "20410" "11790" "20779" "20909"
## [313] "20963" "22637" "68188" "381921" "216965" "330177"
## [319] "21810" "21827" "21828" "12845" "21825" "21838"
## [325] "21843" "21841" "21872" "21873" "27375" "242409"
## [331] "18383" "22029" "56191" "64930" "64540" "109246"
## [337] "103733" "103768" "22323" "22325" "57257" "22324"
## [343] "22329" "13003" "22330" "22371" "17833" "17831"
## [349] "73178" "22376" "69847" "22629" "22628" "22793"
##
## $HALLMARK_APICAL_SURFACE
## [1] "11487" "68465" "226250" "432442" "11820" "140494" "11975" "21871"
## [9] "27060" "54670" "67331" "14595" "12189" "54215" "230872" "16328"
## [17] "11630" "20312" "73379" "13640" "13846" "13835" "13840" "13842"
## [25] "270190" "13848" "13841" "13836" "13838" "13844" "13837" "13839"
## [33] "13845" "14252" "14451" "14462" "14461" "58991" "14866" "14864"
## [41] "14867" "68312" "14862" "14863" "14865" "15507" "16185" "16186"
## [49] "17096" "72434" "17153" "74762" "320772" "56406" "80883" "171171"
## [57] "100102" "241035" "192190" "18793" "56315" "58176" "237847" "269295"
## [65] "64706" "268935" "56788" "110380" "20521" "20528" "20525" "142681"
## [73] "51795" "72043" "21838" "242409"
##
## $HALLMARK_HEDGEHOG_SIGNALING
## [1] "11423" "14766" "27494" "12569" "12571" "12614" "53883" "12804"
## [9] "12933" "22240" "12934" "26757" "23872" "14632" "15213" "15214"
## [17] "16728" "269116" "12661" "16825" "17886" "17880" "17883" "17882"
## [25] "17879" "17885" "17884" "544791" "71960" "77579" "140781" "668940"
## [33] "17888" "18015" "18096" "14912" "74561" "319504" "18186" "18187"
## [41] "94190" "18815" "18854" "19206" "19207" "218397" "104001" "20254"
## [49] "20423" "13363" "16147" "20562" "20563" "20564" "21838" "21885"
## [57] "21888" "21887" "22253" "107448" "107449" "22339" "22359" "16835"
##
## $HALLMARK_COMPLEMENT
## [1] "11472" "60595" "109711" "11474" "11502" "11552"
## [7] "56697" "11727" "11731" "219033" "503844" "630952"
## [13] "11730" "11747" "11808" "66809" "80287" "11812"
## [19] "11927" "268936" "223770" "78783" "12259" "12262"
## [25] "667277" "50909" "66686" "317677" "50908" "12263"
## [31] "12266" "12268" "15139" "12279" "230558" "12274"
## [37] "109828" "110382" "12349" "12313" "12315" "12314"
## [43] "12362" "12367" "12363" "12369" "12371" "208650"
## [49] "20304" "12491" "21947" "17221" "13136" "13137"
## [55] "333883" "12509" "72269" "12554" "12569" "12608"
## [61] "14962" "12628" "214403" "545366" "12759" "12827"
## [67] "107581" "53867" "71355" "94216" "373864" "12824"
## [73] "12825" "12826" "12830" "12831" "12832" "12836"
## [79] "12842" "12843" "12829" "12828" "12870" "15203"
## [85] "70574" "54381" "12946" "64817" "12902" "13007"
## [91] "13030" "13032" "13033" "13036" "13039" "26898"
## [97] "56092" "56094" "56835" "58518" "70202" "214639"
## [103] "64139" "104002" "117066" "218275" "229445" "13040"
## [109] "13038" "14825" "20310" "330122" "20309" "110197"
## [115] "13139" "380921" "227333" "210293" "75974" "238130"
## [121] "208869" "105445" "13482" "14089" "240672" "67603"
## [127] "235584" "69181" "226419" "13660" "57440" "98878"
## [133] "259300" "14058" "14071" "14061" "14066" "14067"
## [139] "14068" "14069" "14127" "14134" "14133" "14148"
## [145] "14268" "14360" "22612" "14191" "20779" "14462"
## [151] "14461" "227960" "63985" "63986" "14678" "14677"
## [157] "14679" "14693" "14696" "14688" "14702" "14710"
## [163] "14723" "54368" "14571" "14784" "71520" "14938"
## [169] "14939" "14940" "14942" "14944" "14943" "14941"
## [175] "245839" "17231" "14945" "15378" "170638" "26950"
## [181] "193740" "15511" "15481" "15482" "14828" "15512"
## [187] "16193" "16362" "16363" "54123" "16409" "381924"
## [193] "16411" "16424" "16426" "16452" "54721" "16451"
## [199] "80906" "56461" "16563" "73470" "73804" "16612"
## [205] "16624" "16619" "16615" "16623" "16622" "16617"
## [211] "16616" "16613" "13646" "13648" "18048" "18050"
## [217] "16618" "13647" "16621" "109821" "70789" "320858"
## [223] "16784" "66988" "16818" "17096" "15162" "16822"
## [229] "16854" "19141" "16889" "16971" "16973" "16974"
## [235] "94217" "228357" "14725" "16993" "17002" "71775"
## [241] "22041" "17133" "17436" "109264" "107029" "17381"
## [247] "17386" "17387" "17388" "17389" "17391" "17394"
## [253] "83995" "83996" "27361" "17751" "18132" "18128"
## [259] "18129" "18131" "108078" "381816" "26875" "100102"
## [265] "18591" "381511" "18643" "18645" "18675" "18706"
## [271] "18707" "74769" "30955" "320207" "18712" "223775"
## [277] "18783" "27226" "18791" "18793" "56193" "18815"
## [283] "22038" "18828" "78459" "19053" "19052" "56420"
## [289] "67857" "72461" "72843" "19072" "18753" "18761"
## [295] "22074" "114228" "103964" "22073" "22072" "100040233"
## [301] "436523" "436522" "67373" "386551" "77613" "214531"
## [307] "19164" "16912" "98710" "110157" "11836" "109880"
## [313] "19419" "240168" "78287" "19671" "56212" "19822"
## [319] "20196" "20202" "545541" "20255" "20704" "20703"
## [325] "20701" "20700" "20702" "68348" "194604" "18788"
## [331] "11905" "18787" "12258" "16923" "50721" "94214"
## [337] "20909" "21789" "21857" "21858" "71753" "21929"
## [343] "59025" "14479" "236733" "22258" "74112" "84092"
## [349] "70675" "22376" "73178" "170750" "21417" "24136"
## [355] "22762"
##
## $HALLMARK_UNFOLDED_PROTEIN_RESPONSE
## [1] "56454" "228998" "27053" "11910" "11911" "226641"
## [7] "11972" "29810" "23825" "12317" "20293" "20296"
## [13] "20292" "20306" "12608" "12611" "69065" "54124"
## [19] "624855" "72068" "53621" "104625" "231464" "211948"
## [25] "74322" "75901" "70640" "13191" "74747" "77591"
## [31] "245474" "58233" "27362" "100037258" "234699" "192193"
## [37] "13629" "20624" "13666" "13665" "13681" "13682"
## [43] "53975" "192170" "668137" "434080" "13684" "218268"
## [49] "13685" "13688" "208643" "78943" "26918" "50527"
## [55] "66482" "66583" "50912" "227715" "109075" "27998"
## [61] "50911" "231997" "233908" "276919" "56494" "15270"
## [67] "319173" "621893" "319176" "319191" "319162" "232440"
## [73] "319171" "15267" "319192" "319163" "319164" "319165"
## [79] "319166" "319167" "319168" "319169" "319170" "665433"
## [85] "319172" "64209" "22027" "15516" "15519" "14828"
## [91] "15481" "15482" "15512" "193740" "15526" "12282"
## [97] "105148" "667373" "112419" "15957" "16006" "102462"
## [103] "105785" "66913" "68137" "16549" "16573" "16582"
## [109] "16572" "16574" "67207" "50783" "17768" "72198"
## [115] "109019" "69917" "18044" "18045" "52530" "70769"
## [121] "75416" "67134" "18148" "218693" "74108" "72599"
## [127] "71853" "66161" "50907" "107272" "20044" "27966"
## [133] "231452" "56529" "66286" "69162" "28146" "72661"
## [139] "20416" "55963" "69048" "20539" "69019" "76687"
## [145] "76219" "76976" "67398" "20818" "107513" "20856"
## [151] "110960" "272396" "71807" "381801" "52808" "218343"
## [157] "22151" "227613" "73710" "22154" "22153" "22152"
## [163] "545486" "67951" "22339" "22393" "52639" "74781"
## [169] "22433" "73192" "68090" "77254" "22631" "22642"
##
## $HALLMARK_PI3K_AKT_MTOR_SIGNALING
## [1] "107476" "100705" "66713" "74117" "242894" "210044"
## [7] "104110" "11513" "11514" "11512" "11651" "11652"
## [13] "23797" "67605" "11773" "11840" "11841" "192662"
## [19] "56378" "11908" "100040260" "12912" "12283" "69008"
## [25] "12317" "12326" "12534" "12566" "12567" "12575"
## [31] "12576" "12631" "12632" "67300" "13001" "12767"
## [37] "26377" "13198" "72349" "13555" "26940" "13649"
## [43] "13869" "13866" "13867" "13684" "218268" "14103"
## [49] "14171" "14172" "14179" "67112" "14177" "14675"
## [55] "14672" "14682" "14699" "66066" "14784" "71520"
## [61] "110355" "320129" "56637" "15461" "22027" "15516"
## [67] "15519" "16186" "16189" "266632" "16439" "16438"
## [73] "16440" "16818" "17096" "15162" "26397" "26399"
## [79] "26409" "26413" "26417" "26414" "26419" "26420"
## [85] "227743" "17346" "17347" "17874" "17973" "18036"
## [91] "18049" "107607" "70584" "228026" "18643" "18645"
## [97] "18710" "18711" "23988" "241593" "18741" "66350"
## [103] "18795" "18797" "18798" "18796" "18803" "234779"
## [109] "19045" "19047" "434233" "73699" "51792" "108079"
## [115] "105787" "19082" "19087" "19088" "18751" "18750"
## [121] "18752" "19211" "19247" "19353" "110157" "11836"
## [127] "109880" "64143" "19766" "19769" "19762" "20111"
## [133] "20112" "110651" "67071" "74370" "55948" "20491"
## [139] "20525" "20528" "20527" "17126" "17127" "18412"
## [145] "20847" "56480" "56489" "75778" "21844" "24001"
## [151] "21937" "22030" "228775" "22084" "66105" "73318"
## [157] "56550" "381534" "93765" "57257" "22324" "22325"
## [163] "54401"
##
## $HALLMARK_MTORC1_SIGNALING
## [1] "27407" "107476" "100705" "104112" "74205" "50790"
## [7] "66713" "74117" "242894" "27360" "11518" "11519"
## [13] "68465" "11639" "56248" "11674" "79459" "353204"
## [19] "74192" "27053" "11938" "11937" "11951" "228033"
## [25] "73834" "20878" "12035" "20893" "12227" "436199"
## [31] "194735" "12226" "12235" "12301" "12317" "12330"
## [37] "12745" "12449" "12450" "12466" "12467" "12527"
## [43] "12530" "12575" "18636" "26754" "12721" "23789"
## [49] "23790" "107869" "13032" "12767" "66427" "13121"
## [55] "26377" "13198" "74747" "68278" "53817" "74754"
## [61] "13360" "13361" "13595" "192193" "66143" "112407"
## [67] "67204" "100040220" "68801" "54326" "170439" "13806"
## [73] "433182" "13807" "13808" "107508" "50527" "225363"
## [79] "76267" "60527" "56473" "228151" "14149" "14190"
## [85] "14227" "14381" "14380" "14433" "100039229" "100042427"
## [91] "100042025" "622339" "74185" "14629" "74105" "11605"
## [97] "93692" "229363" "14718" "14751" "56637" "14782"
## [103] "14884" "15277" "216019" "212032" "15275" "15288"
## [109] "15357" "208715" "15360" "15452" "22027" "15516"
## [115] "15519" "15525" "14828" "15481" "15482" "15512"
## [121] "193740" "15526" "15510" "15528" "628438" "15926"
## [127] "269951" "319554" "65972" "15982" "15983" "16011"
## [133] "16009" "76614" "231070" "16414" "16415" "16412"
## [139] "16421" "16828" "16835" "22359" "19141" "16993"
## [145] "17113" "26397" "26399" "17216" "17217" "17436"
## [151] "109264" "107029" "56772" "17768" "665563" "59027"
## [157] "18030" "18036" "18046" "63913" "18107" "18108"
## [163] "27275" "70699" "56312" "18451" "18452" "231887"
## [169] "228026" "18641" "18655" "18663" "72157" "226041"
## [175] "236539" "18710" "56305" "18738" "18817" "26432"
## [181] "26433" "18822" "66249" "667034" "18950" "67486"
## [187] "67895" "268373" "269569" "17872" "18477" "21672"
## [193] "107272" "19167" "26441" "19173" "19181" "23996"
## [199] "67089" "66997" "23997" "59029" "19192" "56088"
## [205] "100678" "110391" "19324" "17252" "19769" "19762"
## [211] "68275" "103963" "20135" "382985" "27966" "235293"
## [217] "20250" "20249" "30049" "329065" "64136" "56529"
## [223] "66286" "28146" "72661" "12406" "108037" "20425"
## [229] "54353" "20491" "55963" "20514" "20525" "20528"
## [235] "20527" "14385" "21366" "26570" "20539" "26941"
## [241] "65962" "20322" "20775" "18412" "78925" "94224"
## [247] "107513" "170459" "20855" "20867" "83671" "56480"
## [253] "56489" "21399" "21400" "21753" "236749" "245376"
## [259] "22042" "73166" "69071" "53333" "21991" "228775"
## [265] "22145" "22143" "22144" "22147" "22146" "22142"
## [271] "53857" "238463" "103733" "103768" "50493" "232223"
## [277] "66105" "73318" "56550" "381534" "56207" "67890"
## [283] "22256" "56041" "22375" "22433" "56418"
##
## $HALLMARK_E2F_TARGETS
## [1] "11637" "66471" "68981" "66403" "66929" "70472"
## [7] "20878" "20877" "20871" "12021" "11799" "12189"
## [13] "12190" "52592" "12236" "12419" "12442" "12447"
## [19] "101565" "107995" "12530" "12531" "14793" "52276"
## [25] "12534" "12567" "12575" "12576" "12578" "12579"
## [31] "12580" "72391" "229841" "66570" "12649" "50883"
## [37] "12704" "329977" "54124" "624855" "66197" "58184"
## [43] "110750" "13018" "51797" "55936" "13178" "140917"
## [49] "66422" "68278" "53817" "110052" "76131" "56419"
## [55] "54004" "218977" "13433" "60364" "28080" "72107"
## [61] "110074" "108961" "13626" "13665" "105988" "69639"
## [67] "14056" "14055" "69270" "78833" "109145" "14852"
## [73] "14853" "15270" "319173" "621893" "319176" "319191"
## [79] "319162" "232440" "319171" "15267" "319192" "319163"
## [85] "319164" "319165" "319166" "319167" "319168" "319169"
## [91] "319170" "665433" "319172" "51788" "77605" "15201"
## [97] "15361" "111241" "15364" "97165" "15354" "619829"
## [103] "15366" "71653" "11991" "15574" "210554" "16201"
## [109] "20744" "71777" "233726" "320727" "15374" "70218"
## [115] "110033" "73804" "16563" "16571" "16647" "100043906"
## [121] "98386" "16881" "16906" "16907" "16905" "67684"
## [127] "17089" "56150" "17216" "17215" "17217" "17218"
## [133] "17219" "17220" "17279" "17345" "17350" "212377"
## [139] "17535" "17685" "17768" "17121" "17865" "17864"
## [145] "17869" "107771" "78304" "53605" "50927" "27354"
## [151] "68298" "18102" "70769" "67134" "68219" "103468"
## [157] "218210" "70699" "18393" "56452" "18813" "67054"
## [163] "103135" "18538" "18540" "100710" "71521" "68479"
## [169] "18817" "20873" "18861" "18949" "18969" "18971"
## [175] "18972" "67967" "18973" "66979" "74097" "53892"
## [181] "100336" "53381" "19076" "19090" "19139" "328099"
## [187] "75456" "110639" "101739" "19183" "30939" "26934"
## [193] "19355" "19357" "19360" "19362" "114714" "19384"
## [199] "19428" "75471" "19385" "245688" "19646" "19687"
## [205] "19718" "69263" "69724" "68275" "19891" "68240"
## [211] "20135" "382985" "20425" "108037" "20492" "24061"
## [217] "140557" "13006" "70099" "67241" "20638" "20646"
## [223] "54141" "67629" "66442" "110809" "20382" "245492"
## [229] "20833" "20842" "20843" "50878" "16765" "20937"
## [235] "56403" "74326" "21335" "21379" "106795" "22042"
## [241] "21853" "66131" "21877" "21917" "21973" "22059"
## [247] "20462" "69716" "22154" "22152" "545486" "22153"
## [253] "22151" "67951" "227613" "73710" "103733" "103768"
## [259] "77891" "67196" "66622" "22256" "230484" "106618"
## [265] "22390" "103573" "14375" "26951"
##
## $HALLMARK_MYC_TARGETS_V1
## [1] "24015" "11431" "231872" "11777" "11792" "12237"
## [7] "12261" "69719" "227231" "12330" "12745" "12417"
## [13] "12428" "12461" "12462" "12464" "12465" "12468"
## [19] "107995" "12544" "12566" "12567" "12729" "12785"
## [25] "75064" "26754" "12858" "108062" "83410" "51797"
## [31] "55936" "26965" "66445" "66942" "56200" "94213"
## [37] "110052" "13204" "217207" "69192" "110074" "55949"
## [43] "66235" "13664" "666806" "544881" "435337" "100861908"
## [49] "266459" "627873" "100039042" "100039076" "100039129" "100039162"
## [55] "666862" "100503047" "100039226" "544883" "100039052" "100042776"
## [61] "100861898" "13665" "67204" "100040220" "27979" "55944"
## [67] "78655" "100042807" "13681" "13682" "53975" "13684"
## [73] "218268" "13690" "22384" "107508" "13877" "100042777"
## [79] "225363" "66446" "218236" "14113" "237730" "27041"
## [85] "109801" "30877" "14719" "14852" "14853" "51788"
## [91] "77605" "15182" "69692" "15191" "15192" "15382"
## [97] "229279" "545091" "53379" "627828" "668559" "15381"
## [103] "11991" "74326" "51810" "15452" "15516" "15519"
## [109] "22027" "15510" "15528" "628438" "105148" "15982"
## [115] "15983" "67781" "23918" "23917" "100042069" "85305"
## [121] "16647" "100043906" "16211" "16828" "27756" "66094"
## [127] "56150" "17216" "17217" "17218" "17219" "17220"
## [133] "19935" "78523" "66973" "17869" "107771" "53605"
## [139] "433702" "68092" "70316" "102634451" "52530" "18102"
## [145] "70769" "28126" "67134" "18148" "18263" "18393"
## [151] "18813" "18458" "18459" "67543" "381404" "230721"
## [157] "23983" "18538" "18540" "18655" "18663" "18673"
## [163] "237880" "12034" "18972" "59001" "268373" "269569"
## [169] "14208" "11757" "53381" "68988" "110639" "75456"
## [175] "328099" "19139" "26440" "19166" "26441" "26443"
## [181] "26444" "73677" "26445" "26446" "240289" "23996"
## [187] "67089" "70247" "59029" "22123" "17463" "57296"
## [193] "56351" "100043508" "103136" "14694" "19359" "19384"
## [199] "19428" "75471" "19385" "106344" "19826" "67115"
## [205] "19899" "19934" "68436" "623174" "619547" "100043876"
## [211] "19988" "432502" "11837" "667618" "67097" "16898"
## [217] "27050" "20103" "20104" "105244208" "20133" "27966"
## [223] "66409" "20174" "66870" "56086" "67465" "101943"
## [229] "18674" "20588" "68094" "53607" "20639" "68981"
## [235] "20641" "107686" "67332" "68011" "666609" "20810"
## [241] "20815" "20817" "110809" "20382" "245492" "20383"
## [247] "100502754" "225027" "20823" "381760" "99138" "56403"
## [253] "230908" "21454" "21781" "28185" "20462" "21849"
## [259] "233870" "100041265" "27366" "22171" "108121" "233073"
## [265] "50995" "22194" "218793" "22195" "100042355" "230484"
## [271] "22327" "22333" "22335" "103573" "73192" "14375"
## [277] "22627" "22630" "102634437"
##
## $HALLMARK_MYC_TARGETS_V2
## [1] "231872" "53414" "12417" "12567" "66422" "66942" "13537" "27998"
## [9] "66590" "30877" "101612" "15277" "216019" "212032" "15275" "15510"
## [17] "15528" "628438" "27993" "75751" "76130" "53608" "17217" "17218"
## [25] "67973" "69902" "668455" "434693" "18432" "17869" "107771" "68493"
## [33] "66164" "100608" "70769" "28126" "110109" "67134" "18148" "18813"
## [41] "64934" "18673" "237880" "18817" "20873" "235036" "226169" "71974"
## [49] "56361" "227746" "59028" "107094" "27966" "20509" "116914" "13340"
## [57] "20322" "20810" "338359" "21379" "21453" "15278" "69071" "22256"
## [65] "70683" "72515" "107071"
##
## $HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION
## [1] "320712" "11475" "11468" "11459" "11464" "238880"
## [7] "11461" "11489" "11492" "16790" "11803" "11839"
## [13] "70350" "12064" "12111" "12153" "21892" "24087"
## [19] "54725" "109624" "12321" "67252" "12332" "16007"
## [25] "14219" "12505" "333883" "12509" "12552" "12564"
## [31] "12565" "12563" "320873" "215654" "104010" "23836"
## [37] "239096" "241201" "12558" "12550" "12560" "12561"
## [43] "227485" "12814" "12829" "12828" "107581" "53867"
## [49] "71355" "94216" "373864" "12824" "12825" "12826"
## [55] "12827" "12830" "12831" "12832" "12836" "12842"
## [61] "12843" "12816" "12818" "74320" "12834" "12833"
## [67] "12835" "68553" "245026" "329941" "12837" "234407"
## [73] "269132" "99151" "12845" "21828" "21825" "21827"
## [79] "12847" "50797" "12931" "68588" "14825" "20310"
## [85] "330122" "20309" "20315" "20311" "13132" "13179"
## [91] "13380" "22240" "12934" "12933" "26757" "13518"
## [97] "13601" "407800" "13612" "58859" "23876" "13717"
## [103] "13732" "13807" "433182" "13806" "13808" "14089"
## [109] "13482" "14102" "79201" "14114" "14115" "14118"
## [115] "14119" "218952" "108101" "241639" "14173" "192176"
## [121] "286940" "68794" "14264" "14268" "14234" "17300"
## [127] "14314" "83554" "71665" "14370" "14367" "13197"
## [133] "23882" "17873" "14451" "14579" "14609" "414089"
## [139] "73690" "69286" "544736" "14733" "67305" "23892"
## [145] "56213" "78558" "15902" "16008" "16009" "16011"
## [151] "16010" "16168" "16193" "16323" "16324" "16398"
## [157] "213119" "319480" "109700" "16402" "241226" "16399"
## [163] "16410" "16412" "16416" "16419" "16420" "16476"
## [169] "16477" "16478" "16772" "16773" "16774" "226519"
## [175] "18208" "18209" "23928" "16782" "16852" "16948"
## [181] "16949" "94352" "16950" "67573" "100862072" "16971"
## [187] "16973" "16974" "94217" "228357" "14725" "74488"
## [193] "17022" "107528" "17181" "17182" "17220" "17294"
## [199] "50530" "17313" "83995" "83996" "17394" "17387"
## [205] "17388" "17389" "17391" "17390" "17392" "17384"
## [211] "17701" "17702" "242050" "98932" "107589" "18074"
## [217] "18113" "21743" "18129" "18128" "18132" "18131"
## [223] "23959" "235106" "330908" "18430" "56401" "210530"
## [229] "18542" "76477" "18596" "18595" "30794" "18645"
## [235] "18643" "18793" "18822" "26432" "26433" "65112"
## [241] "18858" "50706" "19035" "18933" "20204" "103964"
## [247] "22074" "22073" "22072" "100040233" "436523" "436522"
## [253] "114228" "67373" "386551" "19227" "19288" "52118"
## [259] "19294" "104009" "19736" "11852" "20229" "20254"
## [265] "20969" "20971" "18787" "20720" "12406" "20377"
## [271] "54612" "20379" "24051" "24052" "24053" "244431"
## [277] "102857" "20563" "20564" "20562" "20583" "20649"
## [283] "20650" "20692" "20745" "72902" "20750" "21345"
## [289] "21789" "21803" "21810" "21814" "21817" "331046"
## [295] "21826" "21838" "21857" "21859" "21923" "21929"
## [301] "18383" "27279" "22003" "22004" "326618" "22329"
## [307] "13003" "22339" "22341" "22352" "13346" "19132"
## [313] "215280" "22418" "22419"
##
## $HALLMARK_INFLAMMATORY_RESPONSE
## [1] "11303" "11304" "27403" "268379" "74591" "11305"
## [7] "11308" "329165" "11479" "269275" "21812" "11480"
## [13] "11481" "13733" "11535" "11541" "11540" "56436"
## [19] "100043022" "11622" "23796" "64008" "11938" "11937"
## [25] "67972" "11941" "320707" "381290" "235574" "26362"
## [31] "17289" "12061" "24115" "69550" "12227" "436199"
## [37] "194735" "12226" "12267" "12273" "319430" "54598"
## [43] "12311" "20295" "20293" "20296" "20292" "20306"
## [49] "20297" "20299" "56221" "20304" "12775" "54199"
## [55] "12475" "21939" "12506" "13136" "13137" "12515"
## [61] "21948" "12521" "12493" "12575" "54371" "60322"
## [67] "23845" "14747" "12977" "12985" "12986" "20312"
## [73] "15945" "56066" "20311" "20309" "17329" "80901"
## [79] "13058" "237038" "73379" "50498" "13614" "19106"
## [85] "13732" "13874" "14066" "233079" "14293" "14289"
## [91] "14294" "14291" "14290" "321020" "14367" "14370"
## [97] "54393" "14528" "14676" "14679" "14677" "14678"
## [103] "14723" "14734" "56696" "321019" "15117" "15118"
## [109] "15200" "15251" "13819" "15451" "15465" "15894"
## [115] "15898" "78369" "50723" "230623" "230613" "329918"
## [121] "68713" "66141" "74482" "80876" "213002" "69147"
## [127] "15975" "15980" "16153" "16154" "16160" "16168"
## [133] "16169" "16173" "16182" "16174" "16175" "16176"
## [139] "16177" "16185" "16190" "16193" "16197" "16323"
## [145] "16324" "108960" "16362" "54123" "16402" "241226"
## [151] "16399" "16410" "16416" "320910" "16491" "16485"
## [157] "16490" "16492" "16493" "16494" "16518" "72413"
## [163] "16561" "16560" "23849" "239739" "16818" "17096"
## [169] "15162" "16822" "16835" "22359" "16878" "14745"
## [175] "16992" "17069" "17167" "54483" "17287" "17295"
## [181] "19882" "17387" "17388" "17389" "17391" "20288"
## [187] "17119" "17869" "107771" "59027" "17986" "18033"
## [193] "18034" "18035" "216799" "378425" "195046" "637515"
## [199] "64685" "14767" "257632" "104443" "108078" "381816"
## [205] "18387" "18413" "18414" "16880" "18438" "18439"
## [211] "18442" "57385" "54216" "18578" "238871" "110385"
## [217] "18577" "14726" "320207" "18793" "50501" "19164"
## [223] "19204" "19217" "19219" "19222" "19267" "19262"
## [229] "52118" "19294" "110157" "11836" "109880" "19419"
## [235] "240168" "19697" "50778" "19734" "56212" "192656"
## [241] "218215" "108089" "19886" "67775" "380713" "224024"
## [247] "20266" "20339" "109815" "20343" "20354" "18787"
## [253] "74442" "27218" "18174" "18173" "20511" "269346"
## [259] "381417" "434203" "20529" "20530" "54403" "20535"
## [265] "59033" "94229" "232156" "240215" "218756" "11987"
## [271] "11989" "11988" "20698" "109552" "192187" "192188"
## [277] "21336" "21338" "21356" "21857" "21897" "21899"
## [283] "24088" "142980" "279572" "21930" "21938" "21942"
## [289] "22035" "326623" "21950" "21983" "22353"
##
## $HALLMARK_XENOBIOTIC_METABOLISM
## [1] "12780" "76408" "17250" "27421" "20927" "20928"
## [7] "244562" "239273" "26874" "11666" "66082" "11429"
## [13] "11430" "93732" "80911" "11431" "11432" "117147"
## [19] "233799" "272428" "233801" "11522" "26876" "69117"
## [25] "100417514" "11529" "11532" "269378" "11615" "70861"
## [31] "77337" "83702" "116852" "105349" "105387" "622402"
## [37] "27384" "432720" "11655" "11669" "72535" "19378"
## [43] "26358" "11668" "56847" "11670" "56752" "30924"
## [49] "11761" "71724" "71872" "213043" "22436" "67489"
## [55] "11816" "64008" "11846" "11847" "59046" "109900"
## [61] "71093" "11938" "11937" "12927" "12035" "233016"
## [67] "68021" "12349" "12368" "12359" "12408" "435489"
## [73] "20300" "12491" "72269" "12583" "104158" "12623"
## [79] "234564" "382044" "13884" "13897" "75704" "244595"
## [85] "14962" "66054" "338403" "12846" "791260" "74114"
## [91] "12944" "66289" "100504232" "20219" "246277" "109672"
## [97] "76884" "20430" "13074" "13076" "13077" "13082"
## [103] "104086" "72082" "13097" "13095" "13096" "13098"
## [109] "69888" "72303" "107141" "226105" "433247" "545288"
## [115] "404195" "13099" "226143" "100043108" "13106" "74519"
## [121] "13110" "230459" "13109" "242546" "100066" "665095"
## [127] "546837" "224044" "74134" "64385" "106648" "631304"
## [133] "72054" "70101" "170716" "208285" "677156" "67880"
## [139] "12409" "51793" "69219" "13195" "15186" "13202"
## [145] "330817" "52585" "66375" "209183" "51798" "68801"
## [151] "54326" "13809" "12499" "13836" "13846" "13845"
## [157] "13835" "13840" "13842" "270190" "13848" "13841"
## [163] "13838" "13844" "13837" "13839" "13849" "13982"
## [169] "66841" "23872" "14058" "14071" "109821" "16621"
## [175] "14080" "14085" "14102" "79201" "14114" "14121"
## [181] "14120" "59083" "14261" "55990" "14262" "226565"
## [187] "14377" "14378" "57436" "14415" "14417" "14450"
## [193] "14528" "231103" "14629" "14538" "14711" "14782"
## [199] "14854" "14859" "14857" "100042314" "14858" "100042295"
## [205] "14865" "14864" "14866" "14867" "68312" "14862"
## [211] "14863" "14873" "68214" "14872" "56794" "55927"
## [217] "54426" "58992" "15368" "15378" "15452" "94175"
## [223] "15483" "15486" "15902" "15926" "269951" "16000"
## [229] "16006" "16010" "16177" "15900" "16424" "16426"
## [235] "16427" "16480" "12387" "85305" "70789" "16816"
## [241] "192654" "259301" "74142" "64898" "14245" "64899"
## [247] "17155" "17156" "230815" "17161" "109731" "223455"
## [253] "17195" "78038" "50997" "17750" "17748" "108156"
## [259] "29811" "18041" "18081" "18107" "18108" "18145"
## [265] "237636" "18104" "18105" "23972" "23971" "18563"
## [271] "27273" "56376" "67399" "18618" "110208" "53328"
## [277] "70804" "68943" "18815" "29858" "18984" "19015"
## [283] "19128" "19171" "19215" "64292" "56351" "100043508"
## [289] "67103" "19286" "209027" "69051" "110351" "380711"
## [295] "19662" "19692" "19693" "67442" "66397" "12401"
## [301] "18787" "55942" "108037" "20425" "20498" "20499"
## [307] "107723" "20514" "20517" "20518" "110172" "108652"
## [313] "242585" "70484" "71706" "14411" "14412" "243616"
## [319] "102857" "21366" "228608" "20733" "67437" "234724"
## [325] "56720" "21808" "225913" "110213" "65963" "69071"
## [331] "21937" "22021" "50500" "22173" "22235" "103149"
## [337] "22271" "76654" "22361" "26464" "22370"
##
## $HALLMARK_FATTY_ACID_METABOLISM
## [1] "23923" "235674" "113868" "52538" "11363" "11364"
## [7] "11409" "11370" "224530" "110460" "11429" "171210"
## [13] "171281" "26897" "217698" "217700" "171282" "170789"
## [19] "11430" "14081" "433256" "216739" "50790" "20216"
## [25] "233799" "272428" "233801" "68738" "11522" "26876"
## [31] "69117" "100417514" "11529" "11532" "68465" "11564"
## [37] "17025" "11668" "26358" "19378" "56847" "72535"
## [43] "11669" "11670" "11671" "56752" "11674" "79459"
## [49] "353204" "11754" "237940" "11792" "11832" "11992"
## [55] "12040" "109778" "12167" "12166" "68021" "12349"
## [61] "12351" "12353" "12408" "435489" "109857" "381045"
## [67] "12479" "12480" "12491" "12613" "12683" "14311"
## [73] "12892" "12894" "12895" "78070" "12896" "12908"
## [79] "12647" "12972" "13076" "13077" "666168" "100040843"
## [85] "13117" "13118" "13119" "277753" "435802" "230639"
## [91] "13120" "81906" "98314" "67460" "74754" "13382"
## [97] "78920" "51798" "93747" "13177" "23986" "69123"
## [103] "74147" "68801" "54326" "13807" "433182" "13806"
## [109] "13808" "13849" "67397" "66841" "14080" "14079"
## [115] "14104" "14194" "14261" "55990" "14373" "57436"
## [121] "14417" "14415" "14447" "14433" "270076" "14645"
## [127] "14555" "14571" "76238" "14874" "51788" "77605"
## [133] "15107" "231086" "56185" "15159" "227095" "15356"
## [139] "208982" "208715" "15360" "15446" "15108" "114664"
## [145] "243168" "15488" "15490" "72479" "15519" "15516"
## [151] "22027" "15505" "15525" "15926" "269951" "170718"
## [157] "15929" "243996" "319554" "100328588" "14204" "73988"
## [163] "100470" "21743" "18113" "67956" "16828" "16852"
## [169] "17001" "17161" "109731" "73724" "17449" "17448"
## [175] "17436" "109264" "107029" "75624" "23945" "17319"
## [181] "56690" "27354" "52683" "18194" "18207" "18263"
## [187] "66357" "13180" "72562" "18597" "18598" "68263"
## [193] "19013" "11758" "320769" "19186" "19270" "19283"
## [199] "19286" "229877" "17252" "107605" "103142" "19683"
## [205] "54150" "216453" "216454" "27400" "70335" "13476"
## [211] "67442" "20194" "66945" "66052" "66925" "56442"
## [217] "26943" "20520" "56517" "30805" "20603" "671878"
## [223] "20916" "56451" "20917" "56720" "68728" "56791"
## [229] "22235" "22275" "22276" "22361" "26464" "213742"
## [235] "22629" "22628"
##
## $HALLMARK_OXIDATIVE_PHOSPHORYLATION
## [1] "11306" "235674" "113868" "52538" "11364" "66885"
## [7] "11370" "110446" "11429" "69597" "114896" "26926"
## [13] "11655" "104776" "11931" "11946" "11947" "11949"
## [19] "66043" "67126" "11951" "228033" "67942" "11958"
## [25] "57423" "27425" "432491" "11950" "71679" "240853"
## [31] "11957" "28080" "54411" "114143" "11984" "11974"
## [37] "76252" "66335" "73834" "11973" "66144" "66290"
## [43] "338375" "108664" "12028" "12039" "69772" "12369"
## [49] "70383" "69802" "226139" "12856" "12857" "12858"
## [55] "12859" "100040340" "12861" "110323" "12864" "102640946"
## [61] "12866" "20463" "66142" "78174" "12867" "100504157"
## [67] "12868" "12894" "12895" "78070" "12974" "71832"
## [73] "109672" "109754" "66445" "13063" "672195" "670717"
## [79] "13067" "67460" "235339" "13382" "78920" "51798"
## [85] "93747" "13177" "110842" "110826" "66841" "14148"
## [91] "14194" "14297" "14661" "14719" "14751" "625249"
## [97] "17713" "97212" "231086" "15159" "15108" "15526"
## [103] "64704" "15926" "269951" "67834" "170718" "15929"
## [109] "243996" "76614" "69046" "432732" "66383" "16828"
## [115] "16832" "72416" "109731" "17161" "17449" "17448"
## [121] "170731" "67414" "66447" "55951" "66419" "27395"
## [127] "94065" "66223" "67994" "24030" "66407" "64655"
## [133] "59054" "211253" "210009" "53375" "54405" "17991"
## [139] "66091" "17992" "68202" "67130" "66416" "68375"
## [145] "66108" "70316" "102634451" "102631912" "68198" "66495"
## [151] "68194" "100041273" "100042503" "66046" "230075" "66916"
## [157] "67264" "66377" "68197" "227197" "226646" "68349"
## [163] "17993" "407785" "623286" "75406" "225887" "17995"
## [169] "72900" "18115" "18105" "18104" "18242" "18293"
## [175] "239017" "74143" "69089" "18597" "18598" "68263"
## [181] "27402" "27273" "381511" "12034" "16922" "66865"
## [187] "69833" "18984" "11757" "67442" "59040" "214952"
## [193] "66945" "67680" "66052" "66925" "67863" "78830"
## [199] "50799" "57279" "18674" "11739" "11740" "20916"
## [205] "56451" "338359" "20930" "27060" "11975" "21871"
## [211] "140494" "30059" "30055" "21854" "66525" "30057"
## [217] "30056" "223696" "28185" "66152" "66594" "67530"
## [223] "22273" "67003" "66694" "66576" "100042918" "22272"
## [229] "22333" "22334" "22335"
##
## $HALLMARK_GLYCOLYSIS
## [1] "74104" "11541" "11540" "77559" "11603" "56248" "11639" "58810"
## [9] "110695" "56752" "11674" "79459" "353204" "230163" "208211" "11727"
## [17] "11731" "219033" "503844" "630952" "11730" "57875" "52231" "59046"
## [25] "11876" "20878" "117592" "76898" "280645" "72727" "72297" "272411"
## [33] "14595" "53418" "56375" "218271" "12124" "23827" "58226" "12291"
## [41] "239556" "12337" "12368" "12505" "12534" "12615" "74241" "100910"
## [49] "76969" "59031" "54371" "60322" "26887" "56773" "17684" "12739"
## [57] "12740" "56863" "76524" "76332" "12831" "12829" "12828" "107581"
## [65] "53867" "71355" "94216" "373864" "12824" "12825" "12826" "12827"
## [73] "12830" "12832" "12836" "12842" "12843" "50797" "107869" "12767"
## [81] "109672" "13179" "74747" "76131" "13382" "26757" "12933" "22240"
## [89] "12934" "13506" "13507" "70601" "13638" "13649" "13869" "13866"
## [97] "13867" "112407" "13710" "13806" "433182" "13807" "13808" "50527"
## [105] "14042" "14043" "70186" "14120" "14121" "14228" "53618" "14381"
## [113] "14380" "53897" "74246" "14635" "69976" "14447" "14433" "14629"
## [121] "14583" "14584" "22122" "93683" "93692" "69080" "331026" "50798"
## [129] "26384" "67980" "14718" "14719" "14733" "14734" "14735" "23888"
## [137] "84111" "110006" "14936" "232493" "23897" "110611" "211208" "245598"
## [145] "15277" "216019" "212032" "15275" "15366" "71653" "26556" "23908"
## [153] "50786" "50785" "50787" "14828" "15481" "15482" "15512" "193740"
## [161] "15926" "269951" "15932" "15937" "16009" "16011" "16164" "384783"
## [169] "16369" "16367" "57444" "68048" "229504" "105785" "66913" "68137"
## [177] "19348" "16563" "73470" "73804" "226413" "16591" "83379" "16828"
## [185] "16833" "76429" "76987" "16876" "16870" "17449" "17448" "17436"
## [193] "109264" "107029" "23989" "17289" "26362" "17295" "19882" "17319"
## [201] "56727" "110119" "17859" "67311" "627235" "50927" "83398" "64580"
## [209] "17423" "78330" "78688" "18194" "23959" "18451" "18452" "18484"
## [217] "55982" "18563" "236900" "18639" "18640" "270198" "56421" "18641"
## [225] "18642" "18648" "56012" "18655" "18663" "66171" "66681" "70974"
## [233] "110094" "18679" "18746" "67451" "18822" "26432" "26433" "54128"
## [241] "67005" "68507" "327814" "233977" "268373" "269569" "19053" "19052"
## [249] "19139" "328099" "75456" "110639" "23996" "110078" "19309" "110095"
## [257] "104009" "104458" "24105" "66646" "52187" "54170" "60406" "50724"
## [265] "20969" "15529" "20970" "66052" "80879" "57274" "27376" "50799"
## [273] "229782" "14385" "20655" "20682" "20665" "20681" "245865" "57357"
## [281] "20855" "20856" "16765" "21351" "21786" "21802" "21810" "83553"
## [289] "74419" "21881" "21983" "21991" "22021" "22166" "67402" "216558"
## [297] "13003" "22339" "22359" "16835" "217119" "233781" "30046" "109263"
##
## $HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY
## [1] "17250" "76408" "27421" "27416" "12780" "20927"
## [7] "20928" "224814" "244562" "239273" "11927" "12359"
## [13] "12581" "112406" "13871" "14159" "14158" "14325"
## [19] "100862446" "434624" "14337" "14381" "14380" "14629"
## [25] "14630" "93692" "69367" "14778" "75512" "14780"
## [31] "625249" "14782" "15242" "15369" "320495" "16477"
## [37] "16476" "16478" "68576" "16985" "17196" "56615"
## [43] "17523" "13861" "76113" "110265" "67130" "68194"
## [49] "100041273" "100042503" "226646" "18104" "18105" "108737"
## [55] "53416" "54132" "56421" "18641" "18642" "18477"
## [61] "21672" "53381" "11758" "320769" "19122" "110854"
## [67] "216161" "224432" "109815" "20655" "20656" "76650"
## [73] "59041" "22166" "67402" "50493" "232223" "26462"
##
## $HALLMARK_P53_PATHWAY
## [1] "268860" "27416" "244562" "17250" "12780" "20927"
## [7] "20928" "239273" "105501" "11479" "269275" "21812"
## [13] "11486" "68048" "57444" "229504" "11636" "11688"
## [19] "11686" "23801" "11689" "68558" "11783" "11820"
## [25] "11910" "108100" "12018" "12028" "53619" "12156"
## [31] "12226" "194735" "436199" "12227" "12362" "12444"
## [37] "12443" "12445" "12450" "12454" "101565" "12520"
## [43] "12521" "12493" "12554" "12569" "12575" "12578"
## [49] "12579" "70925" "12606" "68755" "229933" "12722"
## [55] "23844" "80797" "99663" "99709" "229927" "67426"
## [61] "207785" "13033" "56464" "76884" "20430" "67880"
## [67] "12409" "107986" "13198" "74747" "23853" "13139"
## [73] "110197" "217480" "99480" "71712" "13663" "230233"
## [79] "13836" "13846" "13845" "13835" "13840" "13842"
## [85] "270190" "13848" "13841" "13838" "13844" "13837"
## [91] "13839" "13849" "98845" "22592" "14062" "70186"
## [97] "14102" "79201" "50754" "14149" "14168" "14167"
## [103] "14169" "14281" "56484" "71665" "13197" "23882"
## [109] "216456" "14660" "14667" "14776" "50708" "14957"
## [115] "56702" "80838" "50709" "232440" "15267" "319192"
## [121] "319163" "319164" "319165" "319166" "319167" "319168"
## [127] "319169" "319170" "665433" "319172" "319173" "319176"
## [133] "319191" "319162" "319171" "15270" "621893" "15200"
## [139] "15183" "192231" "15254" "15368" "15461" "18415"
## [145] "15937" "15939" "65972" "16175" "16324" "16323"
## [151] "76500" "16970" "16179" "66383" "192897" "16450"
## [157] "16449" "16476" "16477" "16478" "16554" "16600"
## [163] "16598" "259277" "16667" "68239" "16664" "16666"
## [169] "16832" "16878" "102626" "17164" "17246" "17347"
## [175] "17346" "17119" "17122" "17988" "18072" "18081"
## [181] "70930" "18128" "18129" "214254" "433241" "56312"
## [187] "71839" "18538" "18540" "18590" "64058" "27280"
## [193] "57913" "71795" "20620" "12795" "140570" "18846"
## [199] "18845" "18844" "235611" "140571" "67784" "243743"
## [205] "29858" "80905" "107939" "53892" "17872" "19079"
## [211] "15468" "19124" "19250" "24000" "19267" "19262"
## [217] "19296" "224624" "217371" "14694" "114714" "19367"
## [223] "19730" "74012" "19645" "68098" "67442" "19734"
## [229] "217344" "13650" "75234" "30945" "19899" "54217"
## [235] "626888" "100043215" "100043718" "20042" "100034727" "67941"
## [241] "57294" "100043813" "56437" "101867" "20181" "20183"
## [247] "20194" "20198" "268686" "20229" "20969" "53421"
## [253] "57743" "20724" "170742" "140742" "55948" "116914"
## [259] "20509" "242585" "70484" "17254" "26570" "12703"
## [265] "20683" "20698" "19143" "68428" "13830" "229277"
## [271] "21354" "76281" "99681" "21452" "21802" "21803"
## [277] "17112" "67623" "21950" "21952" "21953" "21954"
## [283] "22057" "22059" "22061" "22062" "21987" "69786"
## [289] "22032" "231712" "69076" "228775" "21807" "52808"
## [295] "56338" "22271" "76654" "22320" "22337" "67776"
## [301] "244810" "59002" "107568" "16396" "66894" "22591"
## [307] "235320" "12192" "22401" "216049"
##
## $HALLMARK_UV_RESPONSE_UP
## [1] "18671" "18669" "18670" "27413" "235674" "113868"
## [7] "239528" "236511" "214150" "11655" "11674" "79459"
## [13] "353204" "11702" "100041585" "232910" "55938" "11828"
## [19] "216869" "109689" "27053" "11910" "66335" "66144"
## [25] "12018" "12125" "12122" "12156" "12215" "12226"
## [31] "194735" "436199" "12227" "12228" "12349" "12367"
## [37] "12424" "12445" "12443" "12444" "12447" "216150"
## [43] "111266" "67615" "71702" "668198" "668213" "668216"
## [49] "668209" "102635357" "668205" "668203" "102635473" "12566"
## [55] "12577" "12579" "12583" "12611" "12660" "110835"
## [61] "12724" "12723" "74325" "12757" "12799" "12824"
## [67] "12829" "12828" "107581" "53867" "71355" "94216"
## [73] "373864" "12825" "12826" "12827" "12830" "12831"
## [79] "12832" "12836" "12842" "12843" "433375" "13039"
## [85] "26898" "56092" "56094" "56835" "58518" "70202"
## [91] "214639" "64139" "104002" "117066" "218275" "14825"
## [97] "20310" "330122" "20309" "66427" "72017" "13076"
## [103] "13077" "56200" "94213" "13350" "13385" "15502"
## [109] "81489" "13559" "104394" "26905" "26908" "217869"
## [115] "13807" "433182" "13806" "13808" "17075" "13849"
## [121] "14156" "14172" "14171" "14179" "14228" "14261"
## [127] "55990" "14281" "14282" "18550" "18553" "18551"
## [133] "18552" "14419" "14528" "14590" "14660" "216456"
## [139] "14778" "75512" "14780" "66168" "17713" "15270"
## [145] "319173" "621893" "319176" "319191" "319162" "232440"
## [151] "319171" "15267" "319192" "319163" "319164" "319165"
## [157] "319166" "319167" "319168" "319169" "319170" "665433"
## [163] "319172" "15013" "15040" "14972" "14991" "15006"
## [169] "15007" "15018" "14964" "14990" "15015" "630294"
## [175] "110557" "15039" "100529082" "14963" "240095" "15043"
## [181] "14985" "110696" "333715" "224753" "224754" "399549"
## [187] "667977" "224756" "15024" "224761" "14997" "14980"
## [193] "15019" "110558" "15368" "51810" "110920" "15512"
## [199] "15481" "14828" "15482" "193740" "15566" "15587"
## [205] "15894" "15898" "16008" "16193" "16195" "16362"
## [211] "16477" "16476" "16478" "16511" "170738" "192775"
## [217] "71765" "16870" "16876" "17096" "17161" "109731"
## [223] "60597" "13728" "232944" "226778" "17308" "17387"
## [229] "17388" "17389" "17391" "19935" "17701" "17702"
## [235] "17961" "17960" "17962" "18035" "18091" "53324"
## [241] "18164" "73340" "504193" "15370" "18213" "18212"
## [247] "18211" "71844" "53319" "83454" "170722" "56177"
## [253] "229759" "15379" "225631" "246086" "11546" "11545"
## [259] "231887" "53318" "227120" "224860" "59001" "50776"
## [265] "245841" "231327" "105675" "66849" "19063" "18747"
## [271] "18749" "18753" "18761" "70767" "19182" "19266"
## [277] "19268" "19280" "11891" "80718" "19419" "240168"
## [283] "19713" "106344" "11852" "103963" "56437" "20182"
## [289] "20364" "20429" "18391" "11739" "11740" "14411"
## [295] "14412" "243616" "102857" "21366" "20656" "20751"
## [301] "18412" "59045" "20867" "59041" "20887" "53315"
## [307] "57429" "57430" "215895" "21338" "21336" "21354"
## [313] "110960" "272396" "71807" "99681" "22042" "73122"
## [319] "110213" "22117" "246221" "22145" "22143" "22144"
## [325] "22147" "22146" "22142" "53857" "238463" "22174"
## [331] "26362" "17289" "22275" "22404" "56418"
##
## $HALLMARK_UV_RESPONSE_DN
## [1] "17250" "76408" "27421" "27416" "12780" "20927"
## [7] "20928" "224814" "244562" "239273" "11480" "11481"
## [13] "27360" "11518" "11519" "99633" "330814" "319387"
## [19] "11541" "11540" "66549" "23797" "11652" "218038"
## [25] "12306" "11746" "11787" "236915" "219140" "226970"
## [31] "67972" "11941" "320707" "381290" "235574" "11990"
## [37] "226255" "22589" "20238" "12040" "12064" "20893"
## [43] "12166" "12286" "12288" "12290" "54652" "12289"
## [49] "12292" "12287" "67252" "12389" "16007" "14219"
## [55] "226751" "217866" "240505" "69562" "69131" "12576"
## [61] "57810" "14007" "13046" "17684" "12814" "12829"
## [67] "12828" "107581" "53867" "71355" "94216" "373864"
## [73] "12824" "12825" "12826" "12827" "12830" "12831"
## [79] "12832" "12836" "12842" "12843" "74320" "13132"
## [85] "13170" "69219" "51793" "50768" "243362" "236920"
## [91] "13383" "23859" "13385" "53310" "68055" "19252"
## [97] "319520" "13548" "216616" "13866" "13869" "13649"
## [103] "13867" "14066" "23876" "58859" "14200" "14360"
## [109] "22612" "14191" "20779" "57265" "14362" "14369"
## [115] "14537" "14609" "414089" "14773" "26385" "14772"
## [121] "15117" "15118" "15893" "15901" "16001" "16011"
## [127] "16009" "234515" "269180" "231070" "16367" "384783"
## [133] "16369" "16416" "545156" "223435" "16531" "16532"
## [139] "16590" "12978" "226519" "18208" "18209" "23928"
## [145] "16772" "16782" "16835" "22359" "14745" "268977"
## [151] "16997" "50791" "14924" "17755" "17754" "23938"
## [157] "26416" "19094" "17295" "19882" "23945" "17314"
## [163] "252875" "17389" "17387" "17388" "17391" "57312"
## [169] "17748" "17750" "116870" "23942" "116871" "17869"
## [175] "107771" "59125" "18028" "18027" "18029" "18032"
## [181] "18033" "18034" "71175" "18129" "18128" "18132"
## [187] "18131" "353187" "14815" "18186" "18187" "18596"
## [193] "18595" "56376" "67399" "56273" "213109" "229615"
## [199] "17344" "56469" "18707" "74769" "18706" "18710"
## [205] "18798" "67916" "18858" "19016" "110593" "19088"
## [211] "19087" "18750" "18751" "18752" "18754" "18755"
## [217] "19211" "19220" "24000" "19250" "19274" "19281"
## [223] "19272" "19273" "114713" "19414" "19663" "71973"
## [229] "19736" "74194" "12394" "12399" "12393" "20181"
## [235] "20183" "106583" "30953" "100505386" "20273" "20272"
## [241] "20264" "24046" "20265" "110876" "20269" "20271"
## [247] "15529" "18787" "54650" "217692" "74206" "244668"
## [253] "18400" "11987" "11989" "11988" "17127" "17126"
## [259] "17131" "17130" "20583" "20747" "399676" "212727"
## [265] "207213" "399674" "399675" "383977" "229571" "668359"
## [271] "100043188" "399673" "436563" "668346" "100042761" "109552"
## [277] "64009" "20975" "104015" "210106" "21788" "21813"
## [283] "21814" "21872" "21873" "27375" "328108" "22325"
## [289] "57257" "22324" "207615" "231386" "328365" "52915"
##
## $HALLMARK_ANGIOGENESIS
## [1] "11818" "11820" "12444" "12443" "12445" "12825" "12829" "12828"
## [9] "107581" "53867" "71355" "74320" "94216" "373864" "12824" "12826"
## [17] "12827" "12830" "12831" "12832" "12836" "12842" "12843" "20311"
## [25] "20309" "14182" "14183" "14184" "14186" "14314" "16410" "241226"
## [33] "16402" "16449" "16450" "16523" "16956" "16976" "17022" "17701"
## [41] "17702" "18186" "18187" "108078" "381816" "18590" "56744" "21946"
## [49] "50706" "19074" "53856" "14083" "20198" "268686" "268591" "24059"
## [57] "20750" "20855" "21824" "21857" "94185" "22325" "57257" "22324"
## [65] "13003" "22339" "22370"
##
## $HALLMARK_HEME_METABOLISM
## [1] "74104" "26357" "27405" "13349" "11433" "216739"
## [7] "11518" "27360" "11519" "72674" "68262" "28169"
## [13] "170812" "17025" "11656" "107747" "216188" "104776"
## [19] "11733" "11828" "69632" "213498" "107566" "27053"
## [25] "666468" "102926" "11975" "21871" "140494" "27060"
## [31] "12013" "57278" "84004" "109778" "233016" "140780"
## [37] "269774" "12177" "100043324" "12183" "12215" "12227"
## [43] "436199" "194735" "12226" "12234" "103583" "12266"
## [49] "12268" "15139" "12346" "12349" "12380" "12359"
## [55] "215814" "12445" "12443" "12444" "217232" "12585"
## [61] "237988" "66935" "12725" "12727" "12892" "83429"
## [67] "13030" "13034" "208846" "242418" "28199" "114893"
## [73] "54339" "102323" "13829" "242705" "15467" "192657"
## [79] "71946" "269587" "13822" "13828" "13857" "27028"
## [85] "14055" "78938" "69754" "71538" "14151" "63828"
## [91] "238024" "60611" "56484" "14317" "66691" "14460"
## [97] "14629" "14630" "56209" "73046" "229363" "14934"
## [103] "71683" "14958" "97122" "326619" "319155" "319159"
## [109] "326620" "319156" "319157" "69386" "319158" "319160"
## [115] "100041230" "320332" "319161" "14651" "68977" "101488143"
## [121] "100503605" "436003" "15135" "15129" "15130" "544763"
## [127] "216635" "15122" "110257" "15126" "15191" "15192"
## [133] "15199" "15288" "53415" "64704" "78369" "78908"
## [139] "69046" "432732" "18519" "338523" "23925" "219094"
## [145] "16596" "16599" "75753" "16784" "16909" "64898"
## [151] "14245" "64899" "65107" "26397" "26399" "224703"
## [157] "71779" "17169" "232944" "105787" "226778" "13728"
## [163] "67216" "218121" "52065" "66447" "17330" "54484"
## [169] "22652" "68591" "70380" "17524" "17859" "17896"
## [175] "67608" "67563" "27057" "59125" "18022" "18023"
## [181] "18115" "14815" "71207" "58242" "102954" "71648"
## [187] "74309" "76303" "18452" "18451" "18563" "67182"
## [193] "66171" "233489" "14755" "19044" "225849" "26932"
## [199] "21672" "18477" "67151" "19358" "74334" "110351"
## [205] "380711" "56190" "666794" "83486" "236732" "59028"
## [211] "19743" "19746" "66878" "84585" "30945" "53378"
## [217] "74136" "665119" "20342" "20341" "214597" "320007"
## [223] "214601" "18174" "18173" "30805" "20520" "56517"
## [229] "67712" "208638" "20525" "20528" "20527" "22782"
## [235] "226781" "20533" "20535" "66943" "102857" "14664"
## [241] "104245" "26570" "228608" "20617" "20739" "20740"
## [247] "20741" "104015" "20975" "21349" "21399" "21400"
## [253] "74645" "212943" "211586" "22042" "68875" "330401"
## [259] "56786" "66241" "213988" "233833" "217351" "21961"
## [265] "319939" "21969" "72960" "70827" "67095" "19824"
## [271] "69097" "224762" "216781" "56224" "74257" "70026"
## [277] "22173" "98766" "22228" "22275" "22276" "14479"
## [283] "236733" "22258" "22344" "22439" "65246" "66011"
## [289] "383295"
##
## $HALLMARK_COAGULATION
## [1] "232345" "17837" "17836" "104681" "232400" "11287"
## [7] "93732" "11502" "11727" "11731" "219033" "503844"
## [13] "630952" "11730" "16952" "11806" "11812" "11813"
## [19] "105886299" "11814" "11843" "11844" "12153" "21892"
## [25] "24087" "12259" "667277" "50909" "66686" "317677"
## [31] "50908" "12263" "12266" "12268" "15139" "230558"
## [37] "12279" "12274" "109828" "110382" "69379" "12334"
## [43] "170725" "12333" "12335" "268958" "73647" "12337"
## [49] "12371" "12527" "14962" "11537" "12628" "214403"
## [55] "545366" "12630" "12759" "12845" "21828" "21825"
## [61] "21827" "56373" "93721" "54381" "68337" "114570"
## [67] "13007" "13030" "13034" "13036" "13038" "13040"
## [73] "229445" "13039" "26898" "56092" "56094" "56835"
## [79] "58518" "70202" "214639" "64139" "104002" "117066"
## [85] "218275" "13190" "13482" "14089" "56405" "67603"
## [91] "235584" "14058" "14071" "109821" "16621" "58992"
## [97] "54426" "14060" "14061" "14064" "14066" "14069"
## [103] "14118" "14119" "14161" "99571" "14268" "18550"
## [109] "18553" "18551" "18552" "14360" "22612" "14191"
## [115] "20779" "14544" "14693" "14696" "14688" "14701"
## [121] "14723" "54368" "227753" "20259" "11567" "22349"
## [127] "15360" "15378" "15451" "94175" "56213" "78558"
## [133] "66383" "16398" "213119" "319480" "109700" "16416"
## [139] "16424" "16426" "93691" "259277" "16784" "320202"
## [145] "13590" "19141" "16971" "16973" "16974" "94217"
## [151] "228357" "14725" "16993" "17133" "17175" "230908"
## [157] "17195" "17287" "83995" "83996" "17394" "17384"
## [163] "17392" "17385" "17387" "17388" "17389" "17391"
## [169] "17390" "17393" "17395" "76467" "15235" "108078"
## [175] "381816" "18441" "18591" "18613" "67898" "56744"
## [181] "20309" "18791" "18792" "56193" "18815" "19072"
## [187] "19123" "19128" "66901" "76453" "98710" "19353"
## [193] "223864" "56508" "19733" "20193" "20196" "20704"
## [199] "20703" "20701" "20700" "20702" "68348" "194604"
## [205] "18788" "11905" "18787" "12258" "23921" "64383"
## [211] "20692" "22041" "71775" "17002" "21789" "21824"
## [217] "21857" "21859" "71753" "236733" "14479" "22258"
## [223] "22371" "17833" "17831" "22388"
##
## $HALLMARK_IL2_STAT5_SIGNALING
## [1] "18671" "18669" "18670" "27413" "11492" "11596"
## [7] "269378" "11615" "66395" "100041194" "11622" "11658"
## [13] "17117" "11746" "11803" "11861" "53314" "381319"
## [19] "12043" "12048" "20893" "12156" "12168" "12349"
## [25] "12332" "12335" "268958" "73647" "170725" "12333"
## [31] "12334" "12367" "12444" "12443" "12445" "12447"
## [37] "12773" "12505" "12506" "15985" "12520" "12522"
## [43] "12524" "72729" "57912" "23834" "109332" "12577"
## [49] "12700" "216197" "12810" "12833" "12834" "12977"
## [55] "12981" "13011" "12477" "64138" "15945" "20430"
## [61] "76884" "69305" "19347" "320560" "20148" "381738"
## [67] "13601" "68043" "13730" "13808" "18605" "209558"
## [73] "13813" "320204" "18612" "14064" "14085" "213056"
## [79] "14190" "14256" "18550" "18553" "18551" "18552"
## [85] "57436" "17873" "319625" "14460" "55932" "229900"
## [91] "236573" "76074" "100702" "634650" "626578" "17472"
## [97] "384009" "14744" "14608" "76206" "245526" "625249"
## [103] "14873" "68214" "54195" "15258" "15257" "15259"
## [109] "15277" "216019" "212032" "15275" "74318" "59026"
## [115] "54167" "66141" "68713" "80876" "74482" "213002"
## [121] "69147" "73835" "15979" "16001" "16004" "22779"
## [127] "22781" "16153" "16154" "16163" "16182" "16178"
## [133] "17082" "16184" "16185" "16188" "12982" "16190"
## [139] "16364" "54139" "15900" "16403" "16407" "16410"
## [145] "241226" "16402" "209378" "23849" "225010" "16878"
## [151] "16206" "269473" "320398" "100604" "72267" "231549"
## [157] "433926" "241296" "16994" "17133" "26410" "17760"
## [163] "17164" "102626" "17829" "17119" "17869" "107771"
## [169] "17913" "71602" "17916" "17979" "17978" "14299"
## [175] "17988" "18030" "80859" "110109" "18186" "18187"
## [181] "23959" "18263" "18438" "18439" "18451" "18452"
## [187] "68079" "18619" "21664" "68770" "18712" "223775"
## [193] "22634" "18810" "13518" "11426" "11520" "19012"
## [199] "22038" "18828" "78459" "667034" "18950" "18986"
## [205] "54637" "18755" "18754" "19122" "19206" "19207"
## [211] "19217" "19228" "213527" "217057" "56361" "29809"
## [217] "227800" "19734" "11852" "74734" "107702" "102635744"
## [223] "19883" "52187" "54170" "20193" "20274" "110876"
## [229] "20269" "20271" "20272" "20273" "20264" "24046"
## [235] "20265" "20343" "20344" "20719" "97848" "20708"
## [241] "238568" "435350" "11905" "212531" "50795" "56726"
## [247] "214547" "20514" "13340" "20527" "20525" "67547"
## [253] "57319" "244962" "66616" "12703" "216233" "100043256"
## [259] "20750" "114716" "24066" "20443" "20947" "20973"
## [265] "229521" "21817" "331046" "21844" "24001" "170743"
## [271] "170744" "279572" "21936" "21938" "94185" "22163"
## [277] "21941" "21942" "22035" "21943" "22029" "69863"
## [283] "65960" "80914" "22245" "22247" "68151" "22433"
##
## $HALLMARK_BILE_ACID_METABOLISM
## [1] "11303" "11304" "27403" "268379" "74591" "11305"
## [7] "27410" "381072" "67928" "320631" "233810" "217265"
## [13] "76184" "27404" "217262" "217258" "11666" "26874"
## [19] "19299" "192663" "67470" "14081" "433256" "216739"
## [25] "11611" "208665" "11668" "26358" "19378" "56847"
## [31] "72535" "11669" "237320" "56752" "17117" "11806"
## [37] "64008" "11835" "20238" "170442" "29815" "12161"
## [43] "12359" "12642" "74114" "104086" "56050" "13116"
## [49] "13122" "13123" "13124" "74754" "13370" "107585"
## [55] "13371" "71877" "13850" "76267" "60527" "56473"
## [61] "228151" "14149" "14473" "14630" "14711" "14712"
## [67] "76263" "56794" "15112" "114664" "243168" "15488"
## [73] "27400" "107605" "19683" "54150" "103142" "216453"
## [79] "216454" "15494" "15496" "15497" "15492" "15493"
## [85] "15495" "100043456" "100043461" "101502" "15926" "269951"
## [91] "319554" "66307" "16596" "16818" "17096" "15162"
## [97] "16890" "66887" "56690" "17999" "18145" "237636"
## [103] "23957" "20186" "18171" "110784" "67993" "71648"
## [109] "212503" "111175" "71382" "18631" "69129" "103737"
## [115] "72129" "18633" "19298" "74043" "224824" "18634"
## [121] "18642" "56421" "18641" "16922" "19193" "67452"
## [127] "54683" "19301" "19659" "67442" "20181" "20183"
## [133] "20280" "12401" "18400" "20522" "54338" "26458"
## [139] "225579" "26459" "63959" "73836" "28250" "28248"
## [145] "28254" "108096" "625716" "435927" "28253" "58807"
## [151] "223920" "20655" "56362" "54200" "100043194" "76971"
## [157] "638251" "434121" "629203" "434264" "629219" "20859"
## [163] "81879" "22221" "22139"
##
## $HALLMARK_PEROXISOME
## [1] "18671" "18669" "18670" "27413" "56325" "21355"
## [7] "27416" "244562" "17250" "12780" "20927" "20928"
## [13] "239273" "11666" "26874" "19299" "235674" "113868"
## [19] "170789" "11430" "14081" "433256" "216739" "50790"
## [25] "11657" "11668" "26358" "19378" "56847" "72535"
## [31] "11669" "56752" "20238" "12042" "12287" "12286"
## [37] "12288" "12290" "54652" "12289" "12292" "54725"
## [43] "12359" "12572" "12613" "76524" "26889" "12785"
## [49] "75064" "12903" "12904" "12908" "12647" "13016"
## [55] "13017" "51797" "55936" "74754" "20148" "13370"
## [61] "107585" "13385" "51798" "23986" "69123" "74147"
## [67] "68801" "54326" "13850" "13870" "70333" "13872"
## [73] "13983" "16204" "76267" "60527" "56473" "228151"
## [79] "110196" "66437" "14712" "76263" "56185" "15356"
## [85] "208982" "15461" "15484" "114664" "243168" "15488"
## [91] "101502" "15492" "15925" "15926" "269951" "319554"
## [97] "66307" "16413" "66887" "56690" "17685" "78388"
## [103] "18171" "110959" "18458" "18459" "67543" "381404"
## [109] "230721" "18631" "18632" "72129" "56273" "19302"
## [115] "19305" "224824" "18477" "21672" "54683" "17252"
## [121] "67442" "20183" "20181" "22287" "20280" "20348"
## [127] "20346" "20347" "20349" "108151" "12401" "20437"
## [133] "20438" "54338" "20524" "67283" "11739" "11740"
## [139] "26458" "225579" "73836" "20588" "68094" "20655"
## [145] "20656" "20905" "54200" "100043194" "76971" "638251"
## [151] "434121" "629203" "434264" "629219" "20859" "21973"
## [157] "12257" "22139" "71773" "100559" "100727" "112417"
## [163] "243085" "231396" "22238" "72094" "552899" "20479"
## [169] "116733" "22629" "22628"
##
## $HALLMARK_ALLOGRAFT_REJECTION
## [1] "234734" "24015" "11308" "329165" "11423" "11480"
## [7] "11481" "11651" "11652" "23797" "11785" "12010"
## [13] "12035" "12042" "12051" "12189" "12263" "12332"
## [19] "27220" "20292" "20306" "20293" "20296" "24047"
## [25] "100040035" "100861618" "100039789" "100861647" "100039848" "100039053"
## [31] "100043918" "100043921" "100039973" "20299" "20303" "20304"
## [37] "12444" "12443" "12445" "12768" "12770" "12772"
## [43] "12774" "12479" "12480" "12481" "12503" "12487"
## [49] "12500" "12501" "12502" "12504" "21939" "21947"
## [55] "16423" "12516" "16149" "12518" "12519" "12524"
## [61] "12525" "12526" "84544" "12578" "12579" "18636"
## [67] "54698" "12977" "12988" "13040" "13038" "55985"
## [73] "17329" "12766" "226414" "13244" "619326" "70059"
## [79] "226419" "69181" "13649" "13869" "13866" "13867"
## [85] "13669" "55944" "78655" "100042807" "230861" "208643"
## [91] "276770" "50701" "19152" "56501" "13874" "23871"
## [97] "14061" "14062" "14102" "79201" "14103" "14130"
## [103] "14131" "677296" "14191" "14360" "20779" "22612"
## [109] "192176" "286940" "68794" "23880" "14423" "271786"
## [115] "14469" "14468" "229900" "14537" "170823" "14744"
## [121] "14938" "14939" "14940" "14942" "14944" "14943"
## [127] "14941" "245839" "17231" "15163" "79221" "15184"
## [133] "56233" "208727" "15251" "13819" "15006" "15013"
## [139] "14972" "15040" "14990" "15007" "15018" "14964"
## [145] "14991" "14963" "15015" "110557" "630294" "667977"
## [151] "240095" "15043" "14985" "110696" "333715" "224753"
## [157] "224754" "399549" "100529082" "15039" "224756" "15024"
## [163] "224761" "14997" "69717" "14980" "15019" "110558"
## [169] "14998" "15000" "14999" "15001" "15002" "14961"
## [175] "14960" "100504404" "667803" "15894" "15898" "50723"
## [181] "230623" "230613" "329918" "15976" "15978" "15979"
## [187] "15980" "80719" "16150" "12675" "16153" "16156"
## [193] "16159" "16160" "16161" "16163" "16168" "16170"
## [199] "16173" "16174" "16176" "16183" "50931" "16184"
## [205] "16185" "16186" "16189" "16190" "16193" "16196"
## [211] "16198" "16323" "16324" "16364" "54123" "15900"
## [217] "16408" "16414" "16415" "16412" "16421" "16428"
## [223] "21682" "12229" "16452" "54721" "16451" "16643"
## [229] "16678" "16681" "16687" "16688" "406220" "110308"
## [235] "16818" "17096" "15162" "16822" "16878" "16994"
## [241] "17076" "17084" "26409" "26411" "17195" "17395"
## [247] "94062" "76784" "17972" "17973" "17086" "216799"
## [253] "378425" "195046" "637515" "18102" "18126" "18127"
## [259] "18125" "18148" "56744" "20309" "18646" "18751"
## [265] "18750" "18752" "19171" "15170" "19264" "104458"
## [271] "192656" "67248" "68172" "66211" "27367" "20005"
## [277] "100042823" "194905" "20085" "20091" "100043780" "76846"
## [283] "54390" "12703" "56468" "20375" "19073" "20452"
## [289] "192187" "192188" "20846" "20848" "20849" "21354"
## [295] "21355" "56325" "21356" "21803" "21808" "21838"
## [301] "21857" "21897" "21899" "24088" "142980" "279572"
## [307] "21926" "21985" "22030" "77647" "216080" "75097"
## [313] "237009" "93765" "22375" "22376" "73178" "22637"
## [319] "20963"
##
## $HALLMARK_SPERMATOGENESIS
## [1] "11421" "54137" "11451" "11471" "11470" "21744"
## [7] "11495" "11516" "15463" "11643" "11642" "11687"
## [13] "11685" "11684" "11861" "109979" "11872" "20878"
## [19] "109880" "11836" "110157" "12235" "12326" "12427"
## [25] "12442" "12467" "12466" "12534" "72391" "12638"
## [31] "231600" "12672" "12745" "12330" "20480" "74438"
## [37] "215890" "12794" "72978" "12812" "22024" "11572"
## [43] "11571" "13000" "12995" "13012" "69294" "27214"
## [49] "13176" "18007" "30959" "13206" "13404" "50796"
## [55] "56691" "71854" "319446" "13479" "12686" "14056"
## [61] "14055" "14415" "14417" "14447" "14433" "14581"
## [67] "14582" "23885" "627264" "434725" "668964" "668963"
## [73] "668960" "668958" "630022" "100040482" "100040533" "100040606"
## [79] "100040722" "100040732" "100040781" "100042168" "100042254" "100042275"
## [85] "100861971" "100862067" "100862329" "11536" "14823" "268934"
## [91] "108073" "14816" "108069" "108071" "108072" "14840"
## [97] "14866" "14864" "14867" "68312" "14862" "14863"
## [103] "14865" "107970" "15126" "216635" "544763" "15122"
## [109] "110257" "15407" "15429" "15482" "15481" "193740"
## [115] "14828" "15512" "15511" "18415" "15563" "15564"
## [121] "15925" "21821" "16162" "16165" "27399" "83964"
## [127] "73804" "16563" "16833" "14245" "64899" "17761"
## [133] "17776" "56527" "328329" "17288" "17349" "17354"
## [139] "246198" "17773" "244701" "56717" "97243" "56292"
## [145] "117903916" "215387" "380684" "18040" "18005" "18016"
## [151] "18125" "18126" "18127" "53885" "18168" "53814"
## [157] "18285" "69310" "56522" "18789" "216578" "11546"
## [163] "11545" "30052" "18551" "18550" "18598" "18597"
## [169] "23980" "76400" "18663" "18655" "74451" "71838"
## [175] "68961" "17344" "18976" "19087" "19088" "19119"
## [181] "56088" "19356" "106344" "68172" "67248" "20255"
## [187] "20394" "18952" "214547" "93759" "20496" "20495"
## [193] "20497" "56485" "435818" "20616" "67946" "56324"
## [199] "20744" "16201" "20957" "21351" "21463" "71841"
## [205] "24084" "21830" "71868" "83553" "74419" "21881"
## [211] "21888" "21887" "21885" "21954" "21953" "21952"
## [217] "21958" "21959" "235559" "22099" "22115" "22137"
## [223] "22144" "22147" "22143" "22146" "22145" "22142"
## [229] "53857" "238463" "56734" "22335" "53422" "72350"
## [235] "75553" "20834" "53604"
##
## $HALLMARK_KRAS_SIGNALING_UP
## [1] "18671" "18669" "18670" "27413" "11421" "11491"
## [7] "11501" "58860" "13522" "78560" "70693" "170757"
## [13] "83397" "11652" "23797" "19378" "26358" "11668"
## [19] "56847" "72535" "11669" "56068" "225339" "57875"
## [25] "11732" "101772" "243634" "228432" "26359" "11815"
## [31] "11846" "66795" "78937" "11796" "11797" "17951"
## [37] "17952" "17940" "17948" "12156" "12183" "228662"
## [43] "12223" "12267" "12349" "69008" "12402" "234309"
## [49] "30951" "20297" "12444" "12443" "12445" "72972"
## [55] "12493" "12521" "71891" "14962" "12628" "214403"
## [61] "545366" "50702" "12683" "14311" "73149" "269799"
## [67] "26888" "474145" "69810" "381809" "17474" "56620"
## [73] "14747" "12876" "74114" "12981" "12982" "16188"
## [79] "13040" "13038" "15945" "12767" "73379" "71972"
## [85] "94176" "330662" "68813" "67603" "235584" "13730"
## [91] "13805" "13823" "13844" "13845" "270190" "13846"
## [97] "13835" "13840" "13842" "13848" "13841" "13836"
## [103] "13838" "13837" "13839" "13874" "50527" "23871"
## [109] "14009" "18612" "104156" "14020" "213027" "74145"
## [115] "331046" "14063" "106052" "14127" "14180" "80857"
## [121] "80903" "14257" "14254" "71665" "14373" "14396"
## [127] "14394" "14395" "110886" "23882" "13197" "14425"
## [133] "207839" "14584" "93692" "66066" "14699" "93695"
## [139] "64297" "70355" "60596" "71683" "319178" "319184"
## [145] "319185" "319186" "319187" "319188" "319189" "68024"
## [151] "69389" "78303" "319179" "319180" "319181" "319183"
## [157] "15200" "79221" "15184" "56233" "208727" "216019"
## [163] "15277" "212032" "15275" "15431" "15483" "15902"
## [169] "16002" "16009" "16011" "22778" "16154" "16176"
## [175] "107527" "16186" "77125" "16197" "16323" "16324"
## [181] "15900" "16398" "213119" "319480" "109700" "16414"
## [187] "16415" "16412" "16421" "223272" "16480" "12387"
## [193] "16534" "16574" "16572" "16573" "16600" "16598"
## [199] "16792" "56743" "18826" "102866" "102502" "16878"
## [205] "17087" "16658" "17132" "228576" "26401" "26411"
## [211] "17761" "67468" "75104" "17384" "17392" "17385"
## [217] "17395" "14012" "233315" "18109" "17870" "17954"
## [223] "18049" "18080" "23957" "20186" "18186" "18187"
## [229] "18546" "30052" "58205" "18613" "18616" "18703"
## [235] "18791" "18792" "18793" "27260" "84094" "57349"
## [241] "20309" "17872" "12142" "66390" "225655" "19092"
## [247] "19091" "18933" "20204" "16913" "56195" "68927"
## [253] "19225" "19224" "19279" "320139" "29809" "227800"
## [259] "19653" "66704" "102902673" "19662" "19699" "57264"
## [265] "57263" "19734" "20230" "20255" "20394" "20266"
## [271] "76816" "20347" "16625" "20716" "271047" "20717"
## [277] "238393" "20714" "20715" "74069" "628900" "238395"
## [283] "194604" "20568" "20614" "20616" "20682" "20665"
## [289] "20681" "13602" "233744" "20750" "24064" "20440"
## [295] "268980" "94186" "97387" "21788" "170744" "170743"
## [301] "67888" "72309" "66058" "65963" "21929" "21938"
## [307] "21956" "21957" "21955" "240832" "21990" "22029"
## [313] "211770" "217410" "66805" "66109" "21912" "56496"
## [319] "72088" "22217" "69727" "67776" "244810" "74320"
## [325] "22421" "22422" "230734" "246196" "67778"
##
## $HALLMARK_KRAS_SIGNALING_DN
## [1] "27413" "192663" "11464" "11468" "11459" "11475" "238880" "11461"
## [9] "11553" "14187" "67861" "11997" "11686" "11688" "23801" "11689"
## [17] "11698" "14570" "74100" "117589" "11944" "27222" "192113" "11928"
## [25] "98660" "232975" "110935" "11966" "12021" "12167" "12166" "114642"
## [33] "12227" "436199" "194735" "12226" "15139" "12266" "54652" "12288"
## [41] "12290" "12286" "12289" "12292" "12299" "116903" "12310" "80796"
## [49] "494124" "227541" "52163" "73647" "12335" "170725" "12333" "12334"
## [57] "232821" "12427" "12776" "246278" "21947" "12519" "12556" "68916"
## [65] "53883" "12614" "107934" "11449" "54371" "60322" "12715" "12709"
## [73] "114141" "54420" "57255" "239931" "109791" "232370" "64085" "12804"
## [81] "12824" "12829" "12828" "107581" "53867" "71355" "94216" "373864"
## [89] "12825" "12826" "12827" "12830" "12831" "12832" "12836" "12842"
## [97] "12843" "56358" "56447" "67426" "232680" "71791" "76703" "208922"
## [105] "67579" "231207" "110115" "13072" "56050" "13176" "18007" "106565"
## [113] "13528" "13527" "13608" "13614" "13615" "98363" "27984" "13645"
## [121] "93685" "67464" "13839" "13837" "13846" "13845" "13835" "13840"
## [129] "13842" "270190" "13848" "13841" "13836" "13838" "13844" "80903"
## [137] "14180" "80857" "67112" "14184" "75578" "14308" "14431" "14573"
## [145] "14723" "67133" "22242" "665186" "14760" "14748" "70355" "64297"
## [153] "14804" "14803" "70239" "21405" "15484" "15551" "15552" "15932"
## [161] "15061" "99899" "15978" "16008" "16160" "16191" "23919" "16370"
## [169] "16369" "26549" "16426" "16424" "16427" "16425" "16506" "16508"
## [177] "56543" "246133" "16533" "84036" "140492" "140493" "16536" "110862"
## [185] "213417" "23993" "259277" "381022" "231051" "16678" "16681" "16687"
## [193] "16688" "406220" "110308" "16663" "16665" "16682" "239673" "109052"
## [201] "77055" "406223" "16848" "17305" "19719" "16858" "72434" "404634"
## [209] "26914" "54634" "546071" "56527" "328329" "17776" "54483" "98682"
## [217] "17687" "17769" "17858" "17857" "140781" "17888" "17910" "58916"
## [225] "72333" "64242" "18125" "18126" "18127" "54631" "19065" "18227"
## [233] "18124" "14536" "60345" "18205" "102954" "58242" "71207" "18429"
## [241] "11998" "18440" "57385" "18442" "18505" "18509" "18506" "93872"
## [249] "93873" "93874" "93875" "93876" "93877" "93878" "93879" "93880"
## [257] "93881" "93882" "93883" "93884" "93885" "93886" "93887" "93888"
## [265] "93889" "93890" "93892" "93893" "18566" "18587" "110855" "225600"
## [273] "18604" "18772" "56711" "18948" "50873" "19125" "19127" "19220"
## [281] "19271" "50782" "67747" "66611" "58185" "20190" "20192" "20191"
## [289] "22287" "20264" "20272" "20273" "24046" "20265" "110876" "20269"
## [297] "20271" "20363" "217847" "18788" "20393" "20429" "320007" "214597"
## [305] "20482" "20497" "20496" "20495" "20503" "66972" "71279" "22784"
## [313] "76257" "114479" "56774" "13162" "20538" "66106" "104069" "20621"
## [321] "20665" "20681" "20682" "56632" "20766" "20754" "20753" "20743"
## [329] "20742" "80297" "20741" "20608" "50878" "20843" "20842" "104027"
## [337] "57253" "21415" "21416" "21432" "23964" "23965" "23966" "74645"
## [345] "212943" "104271" "21419" "21418" "81879" "22221" "21785" "21819"
## [353] "21808" "21816" "331046" "232078" "21834" "21908" "21954" "21953"
## [361] "21952" "22094" "71773" "100559" "100727" "112417" "243085" "231396"
## [369] "22238" "72094" "552899" "100647" "22363" "22362" "73288" "93735"
## [377] "53422" "106369" "77864" "235320" "72350" "57745" "22756" "56525"
##
## $HALLMARK_PANCREAS_BETA_CELLS
## [1] "20927" "20928" "17250" "27416" "244562" "239273" "23797" "11652"
## [9] "12652" "13193" "13482" "14089" "77766" "15376" "56458" "14378"
## [17] "14377" "14526" "103988" "21405" "15874" "16334" "16333" "53626"
## [25] "56856" "16392" "104360" "16909" "16658" "17132" "18012" "11925"
## [33] "18088" "18096" "14912" "74561" "18481" "18479" "224105" "18506"
## [41] "18508" "18548" "18549" "18609" "18770" "214189" "56529" "66286"
## [49] "20526" "69019" "20813" "27058" "20818" "20604" "20910" "20911"
## [57] "80976" "22337"List to GeneSetCollection
We can convert the list to a GeneSetCollection to take advantage of GSEABase functionality.
We must first create a list of GeneSet objects using GeneSet() constructor and then create GeneSetCollection from list usin GeneSetCollection constructor.
myGeneSetList <- list()
for (i in 1:length(Mm.H)) {
myGeneSetList[[i]] <- GeneSet(Mm.H[[i]], setName = names(Mm.H)[i])
}
myGeneSetCollection <- GeneSetCollection(myGeneSetList)
myGeneSetCollection## GeneSetCollection
## names: HALLMARK_TNFA_SIGNALING_VIA_NFKB, HALLMARK_HYPOXIA, ..., HALLMARK_PANCREAS_BETA_CELLS (50 total)
## unique identifiers: 11303, 11304, ..., 80976 (5897 total)
## types in collection:
## geneIdType: NullIdentifier (1 total)
## collectionType: NullCollection (1 total)Testing gene set enrichment
Testing gene sets
We will review two different methods to identify functional groups associated with our condition of interest.
- The first method will test for any association of our gene set with our a group of interesting genes (differentially expressed genes).
- The second method will test for any association of our gene set with the ranking of all our genes (ranked by measure of differential expression).
DE results from DESeq2
First lets read in our differential expression results from DESeq2 analysis of activated vs resting T-cells.
Activated_minus_Resting <- read.delim(file = "data/Group_Activated_minus_Resting.csv",
sep = ",")
Activated_minus_Resting[1:3, ]## ENTREZID SYMBOL baseMean log2FoldChange lfcSE stat pvalue padj
## 1 100009600 Zglp1 3.685411 0.2755725 1.855514 0.1485154 0.881936 NA
## 2 100009609 Vmn2r65 0.000000 NA NA NA NA NA
## 3 100009614 Gm10024 0.000000 NA NA NA NA NA
## newPadj
## 1 1
## 2 NA
## 3 NABackground
All GSA methods will require us to filter to genes to those tested for differential expression.
We will therefore filter to all genes which pass our independent filtering step from DESeq2. These will be our genes with no NA in the DESeq2 padj column
Activated_minus_Resting <- Activated_minus_Resting[!is.na(Activated_minus_Resting$padj),
]
Activated_minus_Resting[1:3, ]## ENTREZID SYMBOL baseMean log2FoldChange lfcSE stat pvalue
## 6 100017 Ldlrap1 2752.367 -0.04815446 0.08880811 -0.5422305 5.876598e-01
## 7 100019 Mdn1 2281.866 -1.09612289 0.09214164 -11.8960650 1.240603e-32
## 8 100033459 Ifi208 3282.679 -0.02774770 0.09029354 -0.3073055 7.586109e-01
## padj newPadj
## 6 7.416249e-01 1.000000e+00
## 7 7.038705e-31 2.424386e-28
## 8 8.601547e-01 1.000000e+00goseq package
We can use the goseq package to identify any functional enrichment in a set of interesting genes (i.e. differentially expressed). The goseq package requires a named vector of 1s or 0s indicating whether a gene is upregulated/downregulated.
Here we define a set of genes significantly upregulated in Activated vs Naive T-reg cells (padj <0 05 and log2FC > 0).
UpInAct <- Activated_minus_Resting$padj < 0.05 & Activated_minus_Resting$log2FoldChange >
0
UpInAct <- as.integer(UpInAct)
names(UpInAct) <- Activated_minus_Resting$ENTREZID
UpInAct[1:4]## 100017 100019 100033459 100034251
## 0 0 0 0## UpInAct
## 0 1
## 10883 2450Gene ontology and functional testing.
We can see which genomes are supported using the supportedGenomes() function.
## db species date name
## 2 hg19 Human Feb. 2009 Genome Reference Consortium GRCh37
## 3 hg18 Human Mar. 2006 NCBI Build 36.1
## AvailableGeneIDs
## 2 ccdsGene,ensGene,exoniphy,geneSymbol,knownGene,nscanGene,refGene,xenoRefGene
## 3 acembly,acescan,ccdsGene,ensGene,exoniphy,geneid,geneSymbol,genscan,knownGene,knownGeneOld3,refGene,sgpGene,sibGene,xenoRefGeneGene length bias
The goseq package is specifically designed to account for potential length biases in differential expression analysis and so can remove any artefactual enrichment for long and short genes.
The nullp function assess any biases by evaluating the relationship between differential expression and length.
Functional Enrichment analysis
Having corrected for any bias we can now use the goseq function to for enrichment of GO or KEGG terms.
We must specify the genome build and ID we are using (here matching our TxDb.UCSC.mm10.knownGene.db) and the categories we wish to test (GO:BP, GO:MF, GO:CC, KEGG).
Here we identify the top enriched functional terms in GO biological processes.
## category over_represented_pvalue under_represented_pvalue numDEInCat
## 616 GO:0002376 8.286527e-38 1 545
## 8070 GO:0050896 3.104791e-36 1 1249
## 1784 GO:0006952 3.035683e-32 1 340
## numInCat term ontology
## 616 1788 immune system process BP
## 8070 5188 response to stimulus BP
## 1784 1002 defense response BPRetrieving function groups
We can retrieve the genes in the immune response (GO:0006955) functional group using the select and the org.Mm.eg.db object.
library(org.Mm.eg.db)
ImmuneResponseGenes <- select(org.Mm.eg.db, keytype = "GOALL", keys = "GO:0006955",
columns = "ENTREZID")
ImmuneResponseGenes## GOALL EVIDENCEALL ONTOLOGYALL ENTREZID
## 1 GO:0006955 IDA BP 11350
## 2 GO:0006955 IGI BP 11350
## 3 GO:0006955 IMP BP 11350
## 4 GO:0006955 IDA BP 11465
## 5 GO:0006955 IMP BP 11486
## 6 GO:0006955 IBA BP 11490
## 7 GO:0006955 ISO BP 11490
## 8 GO:0006955 IMP BP 11491
## 9 GO:0006955 IDA BP 11501
## 10 GO:0006955 IMP BP 11513
## 11 GO:0006955 ISO BP 11516
## 12 GO:0006955 ISO BP 11535
## 13 GO:0006955 IEA BP 11537
## 14 GO:0006955 IMP BP 11537
## 15 GO:0006955 IMP BP 11541
## 16 GO:0006955 IDA BP 11542
## 17 GO:0006955 IMP BP 11542
## 18 GO:0006955 ISO BP 11596
## 19 GO:0006955 IDA BP 11600
## 20 GO:0006955 IMP BP 11628
## 21 GO:0006955 IBA BP 11634
## 22 GO:0006955 IDA BP 11634
## 23 GO:0006955 IMP BP 11634
## 24 GO:0006955 IEA BP 11658
## 25 GO:0006955 IMP BP 11687
## 26 GO:0006955 IMP BP 11689
## 27 GO:0006955 ISO BP 11692
## 28 GO:0006955 IBA BP 11727
## 29 GO:0006955 IDA BP 11727
## 30 GO:0006955 ISO BP 11727
## 31 GO:0006955 IBA BP 11730
## 32 GO:0006955 IBA BP 11731
## 33 GO:0006955 ISO BP 11745
## 34 GO:0006955 ISO BP 11765
## 35 GO:0006955 IMP BP 11793
## 36 GO:0006955 IMP BP 11801
## 37 GO:0006955 ISO BP 11806
## 38 GO:0006955 ISO BP 11807
## 39 GO:0006955 IMP BP 11808
## 40 GO:0006955 ISO BP 11808
## 41 GO:0006955 IMP BP 11816
## 42 GO:0006955 ISO BP 11820
## 43 GO:0006955 ISO BP 11829
## 44 GO:0006955 IEA BP 11846
## 45 GO:0006955 IMP BP 11846
## 46 GO:0006955 ISO BP 11846
## 47 GO:0006955 IEA BP 11847
## 48 GO:0006955 IMP BP 11847
## 49 GO:0006955 IMP BP 11891
## 50 GO:0006955 IMP BP 11977
## 51 GO:0006955 IBA BP 12007
## 52 GO:0006955 IEA BP 12010
## 53 GO:0006955 IMP BP 12010
## 54 GO:0006955 ISO BP 12010
## 55 GO:0006955 ISO BP 12014
## 56 GO:0006955 ISO BP 12028
## 57 GO:0006955 IBA BP 12029
## 58 GO:0006955 IBA BP 12042
## 59 GO:0006955 IMP BP 12042
## 60 GO:0006955 ISO BP 12042
## 61 GO:0006955 ISO BP 12043
## 62 GO:0006955 IDA BP 12047
## 63 GO:0006955 IMP BP 12051
## 64 GO:0006955 IBA BP 12053
## 65 GO:0006955 IGI BP 12053
## 66 GO:0006955 IMP BP 12053
## 67 GO:0006955 ISO BP 12062
## 68 GO:0006955 IEA BP 12142
## 69 GO:0006955 IBA BP 12143
## 70 GO:0006955 ISO BP 12143
## 71 GO:0006955 IBA BP 12145
## 72 GO:0006955 IMP BP 12151
## 73 GO:0006955 ISO BP 12161
## 74 GO:0006955 ISO BP 12166
## 75 GO:0006955 IBA BP 12169
## 76 GO:0006955 IEA BP 12229
## 77 GO:0006955 IMP BP 12229
## 78 GO:0006955 ISO BP 12229
## 79 GO:0006955 IBA BP 12231
## 80 GO:0006955 IEA BP 12258
## 81 GO:0006955 ISO BP 12258
## 82 GO:0006955 IEA BP 12259
## 83 GO:0006955 IMP BP 12259
## 84 GO:0006955 IEA BP 12260
## 85 GO:0006955 IBA BP 12261
## 86 GO:0006955 IEA BP 12261
## 87 GO:0006955 ISO BP 12261
## 88 GO:0006955 IEA BP 12262
## 89 GO:0006955 IEA BP 12263
## 90 GO:0006955 ISO BP 12263
## 91 GO:0006955 IDA BP 12265
## 92 GO:0006955 ISO BP 12265
## 93 GO:0006955 IBA BP 12266
## 94 GO:0006955 IDA BP 12266
## 95 GO:0006955 IEA BP 12266
## 96 GO:0006955 IMP BP 12266
## 97 GO:0006955 ISO BP 12266
## 98 GO:0006955 IBA BP 12267
## 99 GO:0006955 ISO BP 12267
## 100 GO:0006955 IBA BP 12268
## 101 GO:0006955 IMP BP 12268
## 102 GO:0006955 IEA BP 12269
## 103 GO:0006955 IBA BP 12273
## 104 GO:0006955 ISO BP 12273
## 105 GO:0006955 IMP BP 12274
## 106 GO:0006955 IEA BP 12279
## 107 GO:0006955 IMP BP 12297
## 108 GO:0006955 IMP BP 12298
## 109 GO:0006955 IEA BP 12326
## 110 GO:0006955 IDA BP 12332
## 111 GO:0006955 ISO BP 12362
## 112 GO:0006955 IEA BP 12363
## 113 GO:0006955 IBA BP 12458
## 114 GO:0006955 IMP BP 12458
## 115 GO:0006955 IEA BP 12475
## 116 GO:0006955 IBA BP 12477
## 117 GO:0006955 IEA BP 12477
## 118 GO:0006955 ISO BP 12477
## 119 GO:0006955 IBA BP 12478
## 120 GO:0006955 IDA BP 12478
## 121 GO:0006955 IEA BP 12478
## 122 GO:0006955 IMP BP 12478
## 123 GO:0006955 ISO BP 12478
## 124 GO:0006955 IBA BP 12479
## 125 GO:0006955 IDA BP 12479
## 126 GO:0006955 IEA BP 12479
## 127 GO:0006955 IMP BP 12479
## 128 GO:0006955 IBA BP 12480
## 129 GO:0006955 ISO BP 12482
## 130 GO:0006955 IBA BP 12483
## 131 GO:0006955 IGI BP 12483
## 132 GO:0006955 ISO BP 12483
## 133 GO:0006955 IDA BP 12484
## 134 GO:0006955 IEA BP 12484
## 135 GO:0006955 IMP BP 12484
## 136 GO:0006955 IBA BP 12487
## 137 GO:0006955 IEA BP 12487
## 138 GO:0006955 IMP BP 12487
## 139 GO:0006955 IEA BP 12491
## 140 GO:0006955 IMP BP 12491
## 141 GO:0006955 IMP BP 12493
## 142 GO:0006955 ISO BP 12494
## 143 GO:0006955 IEA BP 12500
## 144 GO:0006955 IDA BP 12501
## 145 GO:0006955 IEA BP 12501
## 146 GO:0006955 IEA BP 12502
## 147 GO:0006955 IBA BP 12503
## 148 GO:0006955 IDA BP 12503
## 149 GO:0006955 IEA BP 12503
## 150 GO:0006955 IEA BP 12504
## 151 GO:0006955 IMP BP 12504
## 152 GO:0006955 NAS BP 12505
## 153 GO:0006955 IEA BP 12506
## 154 GO:0006955 IBA BP 12509
## 155 GO:0006955 IDA BP 12509
## 156 GO:0006955 IMP BP 12509
## 157 GO:0006955 ISO BP 12509
## 158 GO:0006955 ISO BP 12511
## 159 GO:0006955 IDA BP 12514
## 160 GO:0006955 IEA BP 12516
## 161 GO:0006955 IBA BP 12518
## 162 GO:0006955 IDA BP 12518
## 163 GO:0006955 IEA BP 12518
## 164 GO:0006955 IBA BP 12519
## 165 GO:0006955 IEA BP 12520
## 166 GO:0006955 IMP BP 12520
## 167 GO:0006955 ISO BP 12520
## 168 GO:0006955 IEA BP 12523
## 169 GO:0006955 ISO BP 12523
## 170 GO:0006955 IBA BP 12524
## 171 GO:0006955 IEA BP 12524
## 172 GO:0006955 IBA BP 12525
## 173 GO:0006955 IEA BP 12525
## 174 GO:0006955 IMP BP 12525
## 175 GO:0006955 IEA BP 12526
## 176 GO:0006955 ISO BP 12539
## 177 GO:0006955 IDA BP 12540
## 178 GO:0006955 IMP BP 12557
## 179 GO:0006955 IDA BP 12611
## 180 GO:0006955 IMP BP 12611
## 181 GO:0006955 IDA BP 12628
## 182 GO:0006955 IEA BP 12628
## 183 GO:0006955 IGI BP 12628
## 184 GO:0006955 IMP BP 12628
## 185 GO:0006955 ISO BP 12628
## 186 GO:0006955 IEA BP 12630
## 187 GO:0006955 IMP BP 12630
## 188 GO:0006955 ISO BP 12652
## 189 GO:0006955 IEA BP 12703
## 190 GO:0006955 IDA BP 12705
## 191 GO:0006955 ISO BP 12721
## 192 GO:0006955 IBA BP 12765
## 193 GO:0006955 ISO BP 12765
## 194 GO:0006955 IBA BP 12766
## 195 GO:0006955 IBA BP 12767
## 196 GO:0006955 IBA BP 12768
## 197 GO:0006955 IMP BP 12768
## 198 GO:0006955 ISO BP 12768
## 199 GO:0006955 IBA BP 12769
## 200 GO:0006955 IBA BP 12770
## 201 GO:0006955 IBA BP 12771
## 202 GO:0006955 IBA BP 12772
## 203 GO:0006955 IC BP 12772
## 204 GO:0006955 IMP BP 12772
## 205 GO:0006955 IBA BP 12773
## 206 GO:0006955 IBA BP 12774
## 207 GO:0006955 IBA BP 12775
## 208 GO:0006955 IC BP 12775
## 209 GO:0006955 IMP BP 12775
## 210 GO:0006955 IBA BP 12776
## 211 GO:0006955 IBA BP 12777
## 212 GO:0006955 IBA BP 12778
## 213 GO:0006955 IBA BP 12796
## 214 GO:0006955 IMP BP 12796
## 215 GO:0006955 ISO BP 12796
## 216 GO:0006955 ISO BP 12801
## 217 GO:0006955 IMP BP 12810
## 218 GO:0006955 ISO BP 12825
## 219 GO:0006955 IEA BP 12890
## 220 GO:0006955 IEA BP 12902
## 221 GO:0006955 IEA BP 12909
## 222 GO:0006955 ISO BP 12921
## 223 GO:0006955 ISO BP 12927
## 224 GO:0006955 ISO BP 12928
## 225 GO:0006955 IDA BP 12929
## 226 GO:0006955 IBA BP 12944
## 227 GO:0006955 ISO BP 12944
## 228 GO:0006955 ISO BP 12945
## 229 GO:0006955 IEA BP 12946
## 230 GO:0006955 IMP BP 12946
## 231 GO:0006955 ISO BP 12946
## 232 GO:0006955 TAS BP 12946
## 233 GO:0006955 IEA BP 12977
## 234 GO:0006955 IEA BP 12978
## 235 GO:0006955 IEA BP 12981
## 236 GO:0006955 IEA BP 12985
## 237 GO:0006955 IBA BP 12988
## 238 GO:0006955 IEA BP 12988
## 239 GO:0006955 ISO BP 12988
## 240 GO:0006955 IBA BP 13013
## 241 GO:0006955 IDA BP 13013
## 242 GO:0006955 IGI BP 13032
## 243 GO:0006955 IGI BP 13035
## 244 GO:0006955 IMP BP 13035
## 245 GO:0006955 ISO BP 13035
## 246 GO:0006955 IGI BP 13036
## 247 GO:0006955 ISO BP 13036
## 248 GO:0006955 IBA BP 13038
## 249 GO:0006955 IBA BP 13039
## 250 GO:0006955 IBA BP 13040
## 251 GO:0006955 IBA BP 13051
## 252 GO:0006955 IC BP 13051
## 253 GO:0006955 IMP BP 13051
## 254 GO:0006955 IMP BP 13057
## 255 GO:0006955 ISO BP 13057
## 256 GO:0006955 IMP BP 13058
## 257 GO:0006955 ISO BP 13058
## 258 GO:0006955 ISO BP 13115
## 259 GO:0006955 IEA BP 13136
## 260 GO:0006955 IMP BP 13136
## 261 GO:0006955 ISO BP 13136
## 262 GO:0006955 IEA BP 13137
## 263 GO:0006955 IMP BP 13144
## 264 GO:0006955 ISO BP 13144
## 265 GO:0006955 IEA BP 13169
## 266 GO:0006955 ISO BP 13205
## 267 GO:0006955 IEA BP 13211
## 268 GO:0006955 IMP BP 13211
## 269 GO:0006955 IBA BP 13214
## 270 GO:0006955 IMP BP 13214
## 271 GO:0006955 IBA BP 13215
## 272 GO:0006955 IBA BP 13216
## 273 GO:0006955 IBA BP 13218
## 274 GO:0006955 IBA BP 13219
## 275 GO:0006955 IBA BP 13221
## 276 GO:0006955 IBA BP 13222
## 277 GO:0006955 IBA BP 13226
## 278 GO:0006955 IBA BP 13229
## 279 GO:0006955 IBA BP 13230
## 280 GO:0006955 IBA BP 13232
## 281 GO:0006955 IBA BP 13233
## 282 GO:0006955 IBA BP 13234
## 283 GO:0006955 IBA BP 13235
## 284 GO:0006955 IBA BP 13236
## 285 GO:0006955 IBA BP 13237
## 286 GO:0006955 IBA BP 13238
## 287 GO:0006955 IDA BP 13238
## 288 GO:0006955 IBA BP 13239
## 289 GO:0006955 IBA BP 13240
## 290 GO:0006955 IBA BP 13241
## 291 GO:0006955 IBA BP 13242
## 292 GO:0006955 IBA BP 13243
## 293 GO:0006955 IMP BP 13383
## 294 GO:0006955 IMP BP 13388
## 295 GO:0006955 IDA BP 13419
## 296 GO:0006955 IDA BP 13421
## 297 GO:0006955 IGI BP 13423
## 298 GO:0006955 ISO BP 13482
## 299 GO:0006955 IMP BP 13489
## 300 GO:0006955 IBA BP 13586
## 301 GO:0006955 IBA BP 13587
## 302 GO:0006955 IMP BP 13601
## 303 GO:0006955 IEA BP 13607
## 304 GO:0006955 ISO BP 13667
## 305 GO:0006955 IGI BP 13709
## 306 GO:0006955 IDA BP 13731
## 307 GO:0006955 IEA BP 13733
## 308 GO:0006955 IBA BP 13813
## 309 GO:0006955 IDA BP 13813
## 310 GO:0006955 IEA BP 13813
## 311 GO:0006955 ISO BP 13813
## 312 GO:0006955 IMP BP 13848
## 313 GO:0006955 IMP BP 13870
## 314 GO:0006955 IMP BP 13874
## 315 GO:0006955 IDA BP 14026
## 316 GO:0006955 IBA BP 14038
## 317 GO:0006955 ISO BP 14061
## 318 GO:0006955 IDA BP 14063
## 319 GO:0006955 IEA BP 14063
## 320 GO:0006955 ISO BP 14063
## 321 GO:0006955 IMP BP 14082
## 322 GO:0006955 ISO BP 14082
## 323 GO:0006955 TAS BP 14082
## 324 GO:0006955 IBA BP 14083
## 325 GO:0006955 IEA BP 14102
## 326 GO:0006955 IMP BP 14102
## 327 GO:0006955 IEA BP 14103
## 328 GO:0006955 IDA BP 14109
## 329 GO:0006955 ISO BP 14109
## 330 GO:0006955 IBA BP 14125
## 331 GO:0006955 IDA BP 14125
## 332 GO:0006955 IMP BP 14125
## 333 GO:0006955 IEA BP 14126
## 334 GO:0006955 ISO BP 14126
## 335 GO:0006955 IBA BP 14127
## 336 GO:0006955 IDA BP 14127
## 337 GO:0006955 IMP BP 14127
## 338 GO:0006955 ISO BP 14127
## 339 GO:0006955 IMP BP 14128
## 340 GO:0006955 IBA BP 14129
## 341 GO:0006955 IEA BP 14129
## 342 GO:0006955 IMP BP 14129
## 343 GO:0006955 IBA BP 14130
## 344 GO:0006955 IMP BP 14130
## 345 GO:0006955 ISO BP 14130
## 346 GO:0006955 IBA BP 14131
## 347 GO:0006955 IDA BP 14131
## 348 GO:0006955 IMP BP 14131
## 349 GO:0006955 IBA BP 14132
## 350 GO:0006955 IBA BP 14133
## 351 GO:0006955 IDA BP 14133
## 352 GO:0006955 IEA BP 14133
## 353 GO:0006955 IBA BP 14134
## 354 GO:0006955 IEA BP 14134
## 355 GO:0006955 ISO BP 14134
## 356 GO:0006955 IBA BP 14158
## 357 GO:0006955 IMP BP 14158
## 358 GO:0006955 IBA BP 14159
## 359 GO:0006955 ISO BP 14159
## 360 GO:0006955 IEA BP 14161
## 361 GO:0006955 ISO BP 14161
## 362 GO:0006955 IMP BP 14190
## 363 GO:0006955 IBA BP 14191
## 364 GO:0006955 IDA BP 14191
## 365 GO:0006955 IMP BP 14191
## 366 GO:0006955 ISO BP 14225
## 367 GO:0006955 IMP BP 14245
## 368 GO:0006955 IBA BP 14289
## 369 GO:0006955 ISO BP 14289
## 370 GO:0006955 IBA BP 14290
## 371 GO:0006955 IBA BP 14291
## 372 GO:0006955 IBA BP 14293
## 373 GO:0006955 IBA BP 14294
## 374 GO:0006955 IBA BP 14302
## 375 GO:0006955 IMP BP 14347
## 376 GO:0006955 IBA BP 14360
## 377 GO:0006955 IEA BP 14360
## 378 GO:0006955 ISO BP 14360
## 379 GO:0006955 ISO BP 14367
## 380 GO:0006955 IEA BP 14375
## 381 GO:0006955 ISO BP 14375
## 382 GO:0006955 IMP BP 14389
## 383 GO:0006955 ISO BP 14433
## 384 GO:0006955 IMP BP 14456
## 385 GO:0006955 ISO BP 14461
## 386 GO:0006955 IDA BP 14462
## 387 GO:0006955 IEA BP 14462
## 388 GO:0006955 IMP BP 14462
## 389 GO:0006955 IBA BP 14468
## 390 GO:0006955 IDA BP 14468
## 391 GO:0006955 IBA BP 14469
## 392 GO:0006955 IDA BP 14469
## 393 GO:0006955 ISO BP 14469
## 394 GO:0006955 IBA BP 14525
## 395 GO:0006955 ISO BP 14525
## 396 GO:0006955 ISO BP 14528
## 397 GO:0006955 IMP BP 14728
## 398 GO:0006955 IBA BP 14747
## 399 GO:0006955 ISO BP 14756
## 400 GO:0006955 IBA BP 14762
## 401 GO:0006955 IGI BP 14775
## 402 GO:0006955 IGI BP 14776
## 403 GO:0006955 IMP BP 14824
## 404 GO:0006955 ISO BP 14824
## 405 GO:0006955 IBA BP 14825
## 406 GO:0006955 ISO BP 14825
## 407 GO:0006955 IMP BP 14939
## 408 GO:0006955 IDA BP 14960
## 409 GO:0006955 IEA BP 14960
## 410 GO:0006955 IDA BP 14961
## 411 GO:0006955 IEA BP 14961
## 412 GO:0006955 IMP BP 14961
## 413 GO:0006955 ISO BP 14961
## 414 GO:0006955 IEA BP 14962
## 415 GO:0006955 IGI BP 14962
## 416 GO:0006955 IMP BP 14962
## 417 GO:0006955 ISO BP 14962
## 418 GO:0006955 TAS BP 14962
## 419 GO:0006955 IBA BP 14963
## 420 GO:0006955 IBA BP 14964
## 421 GO:0006955 IDA BP 14964
## 422 GO:0006955 IDA BP 14969
## 423 GO:0006955 IEA BP 14969
## 424 GO:0006955 IBA BP 14972
## 425 GO:0006955 IDA BP 14972
## 426 GO:0006955 IBA BP 14980
## 427 GO:0006955 IBA BP 14985
## 428 GO:0006955 IBA BP 14990
## 429 GO:0006955 IBA BP 14991
## 430 GO:0006955 IDA BP 14991
## 431 GO:0006955 IMP BP 14991
## 432 GO:0006955 ISO BP 14991
## 433 GO:0006955 IBA BP 14997
## 434 GO:0006955 IEA BP 14998
## 435 GO:0006955 IMP BP 14998
## 436 GO:0006955 IEA BP 14999
## 437 GO:0006955 IBA BP 15006
## 438 GO:0006955 IBA BP 15007
## 439 GO:0006955 IBA BP 15013
## 440 GO:0006955 IBA BP 15015
## 441 GO:0006955 IBA BP 15018
## 442 GO:0006955 IDA BP 15018
## 443 GO:0006955 IBA BP 15019
## 444 GO:0006955 IBA BP 15024
## 445 GO:0006955 IBA BP 15039
## 446 GO:0006955 IBA BP 15040
## 447 GO:0006955 IDA BP 15040
## 448 GO:0006955 ISO BP 15040
## 449 GO:0006955 IBA BP 15042
## 450 GO:0006955 IBA BP 15043
## 451 GO:0006955 IBA BP 15061
## 452 GO:0006955 IDA BP 15061
## 453 GO:0006955 IBA BP 15064
## 454 GO:0006955 IEA BP 15064
## 455 GO:0006955 IMP BP 15064
## 456 GO:0006955 ISO BP 15064
## 457 GO:0006955 IDA BP 15101
## 458 GO:0006955 IEA BP 15139
## 459 GO:0006955 IBA BP 15162
## 460 GO:0006955 IGI BP 15170
## 461 GO:0006955 IMP BP 15170
## 462 GO:0006955 IEA BP 15216
## 463 GO:0006955 ISO BP 15216
## 464 GO:0006955 IMP BP 15223
## 465 GO:0006955 IMP BP 15227
## 466 GO:0006955 IDA BP 15275
## 467 GO:0006955 IEA BP 15275
## 468 GO:0006955 IGI BP 15284
## 469 GO:0006955 IMP BP 15284
## 470 GO:0006955 IBA BP 15289
## 471 GO:0006955 IDA BP 15289
## 472 GO:0006955 IEA BP 15289
## 473 GO:0006955 IMP BP 15289
## 474 GO:0006955 IBA BP 15354
## 475 GO:0006955 IEA BP 15354
## 476 GO:0006955 ISO BP 15368
## 477 GO:0006955 IMP BP 15452
## 478 GO:0006955 IMP BP 15458
## 479 GO:0006955 IMP BP 15461
## 480 GO:0006955 ISO BP 15481
## 481 GO:0006955 ISO BP 15510
## 482 GO:0006955 IDA BP 15894
## 483 GO:0006955 ISO BP 15894
## 484 GO:0006955 IMP BP 15900
## 485 GO:0006955 ISO BP 15900
## 486 GO:0006955 IMP BP 15930
## 487 GO:0006955 IDA BP 15944
## 488 GO:0006955 IEA BP 15944
## 489 GO:0006955 IMP BP 15944
## 490 GO:0006955 IBA BP 15945
## 491 GO:0006955 ISO BP 15945
## 492 GO:0006955 IEA BP 15950
## 493 GO:0006955 IBA BP 15951
## 494 GO:0006955 IEA BP 15957
## 495 GO:0006955 IEA BP 15958
## 496 GO:0006955 IEA BP 15959
## 497 GO:0006955 IBA BP 15962
## 498 GO:0006955 IDA BP 15962
## 499 GO:0006955 IBA BP 15964
## 500 GO:0006955 IBA BP 15965
## 501 GO:0006955 IBA BP 15967
## 502 GO:0006955 IDA BP 15967
## 503 GO:0006955 IBA BP 15968
## 504 GO:0006955 IBA BP 15969
## 505 GO:0006955 IBA BP 15970
## 506 GO:0006955 IBA BP 15972
## 507 GO:0006955 IDA BP 15972
## 508 GO:0006955 IBA BP 15974
## 509 GO:0006955 IDA BP 15975
## 510 GO:0006955 IMP BP 15975
## 511 GO:0006955 ISO BP 15975
## 512 GO:0006955 IBA BP 15976
## 513 GO:0006955 ISO BP 15976
## 514 GO:0006955 IBA BP 15977
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## 1918 GO:0006955 IEA BP 216799
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## 1930 GO:0006955 IBA BP 218275
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## 1938 GO:0006955 IEA BP 223723
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## 1958 GO:0006955 IEA BP 225471
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## 1964 GO:0006955 IDA BP 226421
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## 1968 GO:0006955 IBA BP 227059
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## 1973 GO:0006955 IMP BP 228607
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## 1975 GO:0006955 IBA BP 228801
## 1976 GO:0006955 IEA BP 228801
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## 1978 GO:0006955 IMP BP 229096
## 1979 GO:0006955 IEA BP 229603
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## 1981 GO:0006955 IBA BP 229898
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## 1990 GO:0006955 IBA BP 230396
## 1991 GO:0006955 IBA BP 230398
## 1992 GO:0006955 IBA BP 230405
## 1993 GO:0006955 IEA BP 230558
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## 2005 GO:0006955 IEA BP 230979
## 2006 GO:0006955 IMP BP 230979
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## 2008 GO:0006955 IEA BP 231655
## 2009 GO:0006955 IMP BP 231712
## 2010 GO:0006955 IBA BP 232065
## 2011 GO:0006955 IDA BP 232210
## 2012 GO:0006955 IMP BP 232341
## 2013 GO:0006955 ISO BP 232345
## 2014 GO:0006955 IEA BP 232371
## 2015 GO:0006955 ISO BP 232413
## 2016 GO:0006955 IMP BP 232790
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## 2018 GO:0006955 IBA BP 232836
## 2019 GO:0006955 ISO BP 232836
## 2020 GO:0006955 IBA BP 232972
## 2021 GO:0006955 IEA BP 233001
## 2022 GO:0006955 IMP BP 233079
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## 2024 GO:0006955 IMP BP 233080
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## 2026 GO:0006955 IBA BP 234199
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## 2029 GO:0006955 IBA BP 234329
## 2030 GO:0006955 IMP BP 234695
## 2031 GO:0006955 IDA BP 234779
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## 2033 GO:0006955 IDA BP 235047
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## 2039 GO:0006955 IBA BP 235952
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## 2042 GO:0006955 IBA BP 236573
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## 2044 GO:0006955 IMP BP 237625
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## 2059 GO:0006955 IEA BP 239081
## 2060 GO:0006955 IEA BP 239739
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## 2063 GO:0006955 IBA BP 240354
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## 2076 GO:0006955 IEA BP 242100
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## 2083 GO:0006955 IBA BP 242594
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## 2101 GO:0006955 IBA BP 243864
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## 2121 GO:0006955 IBA BP 246700
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## 2138 GO:0006955 IBA BP 266815
## 2139 GO:0006955 IDA BP 268564
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## 2145 GO:0006955 ISO BP 269378
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## 2150 GO:0006955 IBA BP 277345
## 2151 GO:0006955 IBA BP 278180
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## 2155 GO:0006955 IEA BP 317677
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## 2189 GO:0006955 IBA BP 329260
## 2190 GO:0006955 IMP BP 329260
## 2191 GO:0006955 ISO BP 329260
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## 2204 GO:0006955 IMP BP 332579
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## 2209 GO:0006955 ISO BP 333883
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## 2223 GO:0006955 IDA BP 379043
## 2224 GO:0006955 IMP BP 380732
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## 2232 GO:0006955 IMP BP 380797
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## 2237 GO:0006955 IMP BP 380924
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## 2239 GO:0006955 IMP BP 381305
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## 2543 GO:0006955 IEA BP 100033459
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## 2565 GO:0006955 ISO BP 100124457
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## 2574 GO:0006955 IBA BP 100294660
## 2575 GO:0006955 IEA BP 100503878
## 2576 GO:0006955 IMP BP 100503878
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## 2580 GO:0006955 IBA BP 100529082
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## 2585 GO:0006955 IBA BP 100775175
## 2586 GO:0006955 IBA BP 102639802
## 2587 GO:0006955 IBA BP 102640920
## 2588 GO:0006955 ISO BP 102640920
## 2589 GO:0006955 IBA BP 102902673
## 2590 GO:0006955 IBA BP 113002583Retrieving function groups
We can then filter our DE table, with this GO set of immune response GENES and write to file.
IRG_Entrez <- unique(ImmuneResponseGenes$ENTREZID)
IRG_Res <- Activated_minus_Resting[Activated_minus_Resting$ENTREZID %in% IRG_Entrez,
]
write.table(IRG_Res, file = "data/ImmuneResponseGeneTable.csv", sep = ",", row.names = FALSE)
IRG_Res[1:3, ]## ENTREZID SYMBOL baseMean log2FoldChange lfcSE stat
## 8 100033459 Ifi208 3282.6785 -0.0277477 0.09029354 -0.3073055
## 9 100034251 Wfdc17 11.0403 1.4619007 1.15353744 1.2673197
## 107 100038882 Isg15 738.5107 0.6976512 0.15748919 4.4298359
## pvalue padj newPadj
## 8 7.586109e-01 8.601547e-01 1.0000000
## 9 2.050410e-01 3.613285e-01 1.0000000
## 107 9.430483e-06 6.656254e-05 0.1686925GSEA
GSEA
Another popular method for differential expression analysis is the Broad’s GSEA method.
GSEA tests whether our gene set is correlated with the ranking of genes by our differential expression analysis metric using a modified KS-test.
GSEA inputs
We have already seen how we can write gene set collections as gmt format files. The gmt format is the standard input format for GSEA gene sets.
We will also need to produce a ranked table of gene ids and write to a rnk format file. Here will rank by stat column to give sensible measure of differential expression. We could also use log2FoldChange column if we have modified log2 fold changes using lfsShrink() function.
## Activated_minus_Resting.ENTREZID Activated_minus_Resting.stat
## 1 100017 -0.5422305
## 2 100019 -11.8960650
## 3 100033459 -0.3073055rnk file
We can now write our results to a rnk file for use within GSEA.
fgsea
The fgsea package provides access to GSEA method within the R framework.
Once installed we can load library in standard way.
fgsea
We can make use of gmt files directly by using the gmtPathways() function to read our previous created gmt file of mouse translated gene sets.
## [1] "list"## [1] "HALLMARK_TNFA_SIGNALING_VIA_NFKB"
## [2] "HALLMARK_HYPOXIA"
## [3] "HALLMARK_CHOLESTEROL_HOMEOSTASIS"
## [4] "HALLMARK_MITOTIC_SPINDLE"
## [5] "HALLMARK_WNT_BETA_CATENIN_SIGNALING"
## [6] "HALLMARK_TGF_BETA_SIGNALING"
## [7] "HALLMARK_IL6_JAK_STAT3_SIGNALING"
## [8] "HALLMARK_DNA_REPAIR"
## [9] "HALLMARK_G2M_CHECKPOINT"
## [10] "HALLMARK_APOPTOSIS"
## [11] "HALLMARK_NOTCH_SIGNALING"
## [12] "HALLMARK_ADIPOGENESIS"
## [13] "HALLMARK_ESTROGEN_RESPONSE_EARLY"
## [14] "HALLMARK_ESTROGEN_RESPONSE_LATE"
## [15] "HALLMARK_ANDROGEN_RESPONSE"
## [16] "HALLMARK_MYOGENESIS"
## [17] "HALLMARK_PROTEIN_SECRETION"
## [18] "HALLMARK_INTERFERON_ALPHA_RESPONSE"
## [19] "HALLMARK_INTERFERON_GAMMA_RESPONSE"
## [20] "HALLMARK_APICAL_JUNCTION"
## [21] "HALLMARK_APICAL_SURFACE"
## [22] "HALLMARK_HEDGEHOG_SIGNALING"
## [23] "HALLMARK_COMPLEMENT"
## [24] "HALLMARK_UNFOLDED_PROTEIN_RESPONSE"
## [25] "HALLMARK_PI3K_AKT_MTOR_SIGNALING"
## [26] "HALLMARK_MTORC1_SIGNALING"
## [27] "HALLMARK_E2F_TARGETS"
## [28] "HALLMARK_MYC_TARGETS_V1"
## [29] "HALLMARK_MYC_TARGETS_V2"
## [30] "HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION"
## [31] "HALLMARK_INFLAMMATORY_RESPONSE"
## [32] "HALLMARK_XENOBIOTIC_METABOLISM"
## [33] "HALLMARK_FATTY_ACID_METABOLISM"
## [34] "HALLMARK_OXIDATIVE_PHOSPHORYLATION"
## [35] "HALLMARK_GLYCOLYSIS"
## [36] "HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY"
## [37] "HALLMARK_P53_PATHWAY"
## [38] "HALLMARK_UV_RESPONSE_UP"
## [39] "HALLMARK_UV_RESPONSE_DN"
## [40] "HALLMARK_ANGIOGENESIS"
## [41] "HALLMARK_HEME_METABOLISM"
## [42] "HALLMARK_COAGULATION"
## [43] "HALLMARK_IL2_STAT5_SIGNALING"
## [44] "HALLMARK_BILE_ACID_METABOLISM"
## [45] "HALLMARK_PEROXISOME"
## [46] "HALLMARK_ALLOGRAFT_REJECTION"
## [47] "HALLMARK_SPERMATOGENESIS"
## [48] "HALLMARK_KRAS_SIGNALING_UP"
## [49] "HALLMARK_KRAS_SIGNALING_DN"
## [50] "HALLMARK_PANCREAS_BETA_CELLS"fgsea
Similar to goseq package we need to provide a vector of our ranking metric named by gene id. We can create this from our rnk file.
Act_minus_Rest_rnk <- read.delim("data/Activated_minus_Resting.rnk", sep = "\t",
h = FALSE, row.names = 1)
Act_minus_Rest_gsea <- Act_minus_Rest_rnk[, 1]
names(Act_minus_Rest_gsea) <- rownames(Act_minus_Rest_rnk)
Act_minus_Rest_gsea[1:3]## 100017 100019 100033459
## -0.5422305 -11.8960650 -0.3073055fgsea
The fgsea() functions requires our gene sets, named vector of ranking metric, the minimum and maximum sizes of gene sets to be tested (to minSize and maxSize parameters respectively) and the number of permutations to run (nperm parameter).
Act_minus_Rest_gseaRes <- fgsea(mouse_Hallmarks, Act_minus_Rest_gsea, minSize = 15,
maxSize = 500, nperm = 1000)
Act_minus_Rest_gseaRes <- Act_minus_Rest_gseaRes[order(Act_minus_Rest_gseaRes$NES,
decreasing = T), ]
Act_minus_Rest_gseaRes[1:2, ]## pathway pval padj ES
## 1: HALLMARK_INTERFERON_GAMMA_RESPONSE 0.001050420 0.003985969 0.6602350
## 2: HALLMARK_INTERFERON_ALPHA_RESPONSE 0.001116071 0.003985969 0.6734605
## NES nMoreExtreme size leadingEdge
## 1: 2.284848 0 247 14190,16412,20304,229900,55932,56045,...
## 2: 2.216089 0 144 12977,229900,55932,16149,12362,76933,...fgsea
We can extract leading edge genes from leadingEdge column as a list. These are the genes driving your enrichment.
## [[1]]
## [1] "14190" "16412" "20304" "229900" "55932" "56045"
## [7] "16154" "12367" "16149" "15894" "12362" "16421"
## [13] "15251" "76933" "58203" "16912" "21354" "17472"
## [19] "20846" "22320" "16185" "108670" "19188" "15900"
## [25] "67775" "231712" "14964" "15040" "246727" "80876"
## [31] "16913" "12363" "56791" "15018" "12010" "16364"
## [37] "621823" "16362" "22169" "19039" "57444" "78388"
## [43] "243771" "68713" "14972" "21356" "66141" "66892"
## [49] "53620" "100702" "17069" "70152" "12575" "22375"
## [55] "16414" "547253" "50523" "14969" "58185" "19171"
## [61] "27056" "72075" "19106" "626578" "56421" "16822"
## [67] "20847" "327959" "109552" "18950" "26445" "434341"
## [73] "14960" "17857" "66552" "18034" "229003" "236573"
## [79] "60533" "19246" "14998" "19166" "18577" "12369"
## [85] "100038882" "667373" "19186" "64685" "20821" "22038"
## [91] "75345" "14991" "54721" "17768" "16391" "16452"
## [97] "76074" "230073" "65972" "22035" "18712"
##
## [[2]]
## [1] "12977" "229900" "55932" "16149" "12362" "76933"
## [7] "14469" "16912" "21354" "17472" "212943" "246730"
## [13] "108670" "19188" "67775" "231712" "14964" "15040"
## [19] "80876" "16913" "56791" "15018" "12010" "621823"
## [25] "16362" "22169" "19039" "57444" "243771" "67168"
## [31] "68713" "14972" "80285" "66141" "100702" "17069"
## [37] "54199" "22375" "73711" "547253" "58185" "72075"
## [43] "20128" "19106" "16423" "626578" "20847" "74153"
## [49] "17857" "229003" "236573" "23960" "100038882" "19186"
## [55] "64685" "20821" "22038" "22201" "14991" "16391"
## [61] "76074" "65972" "23961" "12799" "17454" "71586"
## [67] "13709"
##
## [[3]]
## [1] "14939" "12772" "12766" "16412" "20304" "17395" "12774" "12332"
## [9] "12977" "229900" "15979" "16149" "16161" "15894" "19073" "16421"
## [17] "15251" "14469" "16174" "21354" "20846" "12516" "14537" "20303"
## [25] "14062" "16185" "16186" "15900" "12481" "14964" "16153" "15040"
## [33] "15163" "15018" "12010" "16364" "12504" "12445" "14972" "21356"
## [41] "12502" "13867" "12501" "12189" "56501" "22375" "17972" "13244"
## [49] "12519" "12051" "16414" "12500" "19171" "21355" "16423" "11785"
## [57] "16822" "19264" "192176" "17096" "21899" "20779" "11651" "13866"
## [65] "13040" "14960" "14998" "15978" "14991" "12768" "54721" "12444"
## [73] "16452" "12487" "18125" "14961" "22376" "14940" "20299" "26411"
## [81] "234734" "17973" "14423" "21803" "329165" "12503" "50723" "667803"
## [89] "13819"
##
## [[4]]
## [1] "17345" "21973" "12531" "12442" "26934" "15251" "15511" "16551"
## [9] "17219" "12428" "16906" "233406" "16905" "20460" "16319" "108907"
## [17] "12534" "12615" "108000" "17218" "76464" "72119" "16571" "11799"
## [25] "110033" "105988" "193740" "23834" "20877" "12449" "73804" "68612"
## [33] "21335" "19651" "209737" "15366" "107823" "12580" "52033" "19366"
## [41] "12445" "229841" "107995" "54124" "17215" "27221" "56150" "18817"
## [49] "12544" "15270" "242705" "16765" "71819" "14211" "20878" "12051"
## [57] "22137" "13555" "18263" "15481" "14056" "72391" "78733" "14828"
## [65] "18005" "18973" "94246" "12235" "19359" "18141" "73086" "12649"
## [73] "231912" "12530" "12444" "17865" "319166" "98386" "21781" "27214"
## [81] "21969" "19891" "26909" "18128" "19291" "16573" "19650" "17118"
## [89] "16574" "21803" "18854" "17216" "77605" "17748" "19357" "67052"
## [97] "13819" "217232" "17127" "20873" "56452" "71514" "272551" "665433"
##
## [[5]]
## [1] "17345" "20135" "21973" "12531" "12442" "26934" "17219" "16906"
## [9] "16905" "52276" "12534" "17218" "108961" "20492" "16571" "11799"
## [17] "110033" "13178" "105988" "20877" "97165" "73804" "21335" "15366"
## [25] "12580" "15201" "67629" "14793" "17279" "12236" "54141" "17217"
## [33] "229841" "107995" "66929" "12447" "16881" "54124" "17215" "13433"
## [41] "12189" "68275" "12575" "106795" "56150" "18817" "15270" "21877"
## [49] "12704" "16765" "20878" "68298" "53381" "66442" "70472" "14056"
## [57] "72391" "19362" "70218" "22390" "66570" "18973" "110074" "17121"
## [65] "212377" "218977" "69639" "12649" "106618" "12530" "17768" "56419"
## [73] "17865" "76131" "18538" "319166" "98386" "110052" "12419" "19891"
## [81] "55936" "17216" "77605" "67967" "19357" "67951" "66422" "20873"
## [89] "12578" "69716" "56452" "114714" "665433" "67196" "72107"
##
## [[6]]
## [1] "16407" "54167" "17916" "14190" "17082" "12332" "66616" "12977"
## [9] "21938" "229900" "15979" "19883" "55932" "16154" "12367" "12773"
## [17] "12477" "66395" "12506" "18671" "17472" "229521" "216233" "16178"
## [25] "16182" "22163" "53314" "11658" "12334" "21936" "384009" "16185"
## [33] "15900" "56726" "20430" "16153" "23834" "80876" "18030" "11622"
## [41] "17873" "11746" "16364" "20973" "20527" "22779" "225010" "12445"
## [49] "68713" "74318" "66141" "12447" "100702" "12505" "15258" "14064"
## [57] "21942" "102626" "107702" "76884" "18263" "626578" "18810" "17913"
## [65] "100604" "11803" "16188" "18950" "19347" "17164" "18451" "17119"
## [73] "12349" "64138" "13011" "236573" "12048" "381738" "68151" "12333"
## [81] "244962" "72729" "69863" "11520" "22038" "17829" "16410" "20893"
## [89] "12444" "76074" "17760" "57912" "71602" "22035" "18712"
##
## [[7]]
## [1] "14939" "20304" "16854" "19141" "12367" "12362" "15511" "16912"
## [9] "240672" "16784" "98878" "13033" "13030" "13660" "16409" "70574"
## [17] "193740" "12608" "12363" "73804" "20196" "16362" "14678" "12315"
## [25] "14784" "12313" "63986" "214531" "14702" "56193" "14462" "56212"
## [33] "13032" "14693" "71520" "80287" "19164" "14688" "15481" "16822"
## [41] "17096" "14828" "20779" "18643" "12349" "19072" "13040" "11927"
## [49] "170750" "11502" "12842" "19052" "12369" "18753" "22038" "54721"
## [57] "16452" "13007" "22376" "18712" "56420" "14940" "18128" "21858"
## [65] "235584" "22041" "50721" "14945" "16363" "12259" "30955" "70675"
## [73] "12262"
##
## [[8]]
## [1] "93692" "14190" "16412" "20135" "19141" "63913" "20491" "16421"
## [9] "13595" "17113" "12450" "12317" "26397" "16828" "22027" "83671"
## [17] "193740" "18030" "18477" "12449" "23789" "19324" "20527" "66286"
## [25] "56248" "17217" "74117" "14751" "66713" "68275" "21991" "12575"
## [33] "18817" "22375" "13032" "15357" "20878" "16414" "26441" "107513"
## [41] "15481" "228033" "50527" "14718" "107272" "242894" "14828" "103963"
## [49] "64136" "12721" "18950" "18451" "15452" "20322" "68465" "26377"
## [57] "13361" "73834" "12235" "23997" "14381" "74192" "50493" "72661"
## [65] "170439" "14782" "26941" "67895" "20893" "11674" "12530" "17768"
## [73] "65972" "112407" "54353" "11938" "14227" "17216" "12330" "56418"
## [81] "27053" "100678" "72157" "21753" "59029" "225363" "18036" "15288"
## [89] "56529" "15275" "100705" "19173" "12745" "23790"
##
## [[9]]
## [1] "16854" "21973" "14676" "12531" "15979" "12367" "12362" "14958"
## [9] "13595" "19165" "21354" "16906" "16905" "14062" "58801" "12481"
## [17] "80876" "97165" "12363" "17873" "12257" "16362" "57444" "12445"
## [25] "68713" "227753" "66141" "13867" "12189" "16952" "12575" "12505"
## [33] "18797" "17948" "19164" "228355" "15368" "22390" "13866" "16478"
## [41] "12048" "223453" "12369" "14775" "12633" "14782" "20259" "12444"
## [49] "12122" "27061" "74256" "22035" "21858" "18003" "18611" "19401"
## [57] "11732"
##
## [[10]]
## [1] "20304" "12977" "21938" "14676" "16154" "15894" "15251" "12521"
## [9] "16174" "12506" "19219" "80901" "16182" "54371" "16185" "67775"
## [17] "218756" "16153" "80876" "11622" "381290" "16362" "14678" "68713"
## [25] "21356" "66141" "11540" "17069" "50498" "54199" "12575" "20354"
## [33] "56212" "14767" "26362" "16491" "21942" "12493" "19164" "19106"
## [41] "16822" "16416" "17096" "109552" "21899"
##
## [[11]]
## [1] "20715" "93692" "16412" "17395" "15902" "21938" "12142" "16154"
## [9] "18826" "16421" "320139" "12521" "11501" "15483" "17132" "18671"
## [17] "16792" "238393" "16398" "16186" "15900" "16913" "12445" "109700"
## [25] "14063" "11491" "94176" "16414" "211770" "17948" "12493" "58205"
## [33] "50527" "93695" "16188" "66390" "12349" "13040" "71665" "56743"
## [41] "83397" "240832" "12444" "76816" "26411" "16573" "14425" "19224"
## [49] "11732" "235584" "16574"
##
## [[12]]
## [1] "16412" "16852" "12332" "15902" "22352" "326618" "226519" "16398"
## [9] "18074" "17873" "20650" "12933" "215280" "73690" "109700" "12505"
## [17] "20649" "19035" "20583" "11839" "16416" "192176" "11803" "18643"
## [25] "104009" "16478" "71665" "12842" "11461" "16410" "65112" "16782"
##
## [[13]]
## [1] "17916" "21973" "12442" "26934" "16551" "16906" "233406" "16905"
## [9] "12540" "277360" "12334" "12345" "16319" "108907" "12534" "108000"
## [17] "72119" "16571" "11799" "110033" "105988" "12927" "73804" "16328"
## [25] "209737" "109934" "22627" "227753" "54141" "229841" "217944" "68743"
## [33] "208628" "18817" "71819" "94176" "20878" "50523" "22137" "208084"
## [41] "223254" "11845" "192176" "74018" "217866" "18005" "12235" "192662"
## [49] "13605" "17974" "218977" "12333" "17698" "259302" "81910" "17886"
## [57] "20259" "16800" "70799" "330177" "231912" "69632" "75786" "71602"
## [65] "22376" "18128" "56376" "68724" "18003" "16573" "17973" "53860"
## [73] "17118" "16574" "73341" "67399" "329165" "27373" "67052" "20739"
## [81] "217232" "242687" "26382"
##
## [[14]]
## [1] "20491" "12317" "26397" "16186" "12534" "22027" "19045" "20111"
## [9] "56378" "20527" "14784" "12631" "13867" "74117" "67300" "66713"
## [17] "12575" "17347" "18797" "71520" "13555" "54401" "20847" "17096"
## [25] "242894" "19087" "12283" "18643" "11651" "13866" "26377" "11513"
## [33] "192662" "13001" "16438" "26413" "12326" "17973" "19353" "14682"
## [41] "110355" "26420" "11840" "266632" "17127" "19247" "72349" "18036"
## [49] "100705" "16189"
##
## [[15]]
## [1] "20198" "21946" "12445" "19074" "14182" "12842" "16410" "12444"
##
## [[16]]
## [1] "93692" "54371" "18746" "12534" "12615" "16828" "193740" "73804"
## [9] "15366" "12933" "57444" "56248" "13867" "11540" "53618" "21991"
## [17] "21881" "80879" "12505" "26362" "16765" "19348" "26384" "20878"
## [25] "22166" "21351" "14719" "56421" "74246" "15481" "50527" "83553"
## [33] "14718" "14828" "20970" "21802" "18451" "13866" "104009" "23827"
## [41] "57357" "14381" "12842" "19052" "69976" "11674" "54128" "76131"
## [49] "16164" "12337" "58810" "17684" "17449" "17448" "112407" "72727"
## [57] "14583" "12124" "229782" "11727" "109672" "15275" "71653" "54170"
## [65] "66646" "50799" "50797" "66681" "233781" "216558" "78330" "74241"
## [73] "59046" "239556" "66913" "67005" "100910" "15277" "236900" "15512"
## [81] "20856" "27376" "18655" "12291" "18194" "110006" "56375" "68137"
##
## [[17]]
## [1] "12977" "21938" "15979" "16161" "20846" "16178" "16182" "16186" "57914"
## [10] "16362" "14784" "16199" "50498" "12505" "71520" "16416" "20847" "15368"
## [19] "16188" "19246" "16478" "12768" "54721" "16391" "16452" "16164" "18712"
## [28] "21803" "12018" "79201" "19247" "15975" "24088" "15945" "12402"
##
## [[18]]
## [1] "16854" "20195" "19141" "63913" "13595" "11658" "60599" "18030"
## [9] "14678" "11465" "71914" "15357" "50762" "11676" "11461" "22038"
## [17] "51798" "19016" "230903"
##
## [[19]]
## [1] "17395" "19141" "16784" "13030" "12334" "16398" "20196" "109700"
## [9] "227753" "56193" "16952" "64383" "14064" "14693" "22388" "11844"
## [17] "14688" "16416" "20779" "19072" "13040" "11502" "12333" "20259"
## [25] "13007" "12337" "18550" "56405" "19353" "235584" "22041" "12259"
## [33] "14544" "259277" "11727" "14191"
##
## [[20]]
## [1] "20715" "21973" "15902" "19143" "226519" "53314" "238393" "20460"
## [9] "56460" "14229" "23834" "225845" "20111" "27375" "381290" "20393"
## [17] "57444" "12445" "107995" "11898" "12505" "217837" "54135" "19348"
## [25] "67784" "74246" "223254" "11839" "192176" "13418" "19087" "18415"
## [33] "225182" "12349" "15452" "114663" "20322" "12017" "26941" "110826"
## [41] "54721" "12864" "12444" "16452" "16782" "94249" "13521" "106572"
## [49] "320997" "12700" "71982" "22041"
##
## [[21]]
## [1] "20198" "20194" "14667" "12362" "12521" "21354" "12795" "19143"
## [9] "20181" "22320" "13033" "12450" "14062" "231712" "20430" "11688"
## [17] "57444" "12445" "53421" "75234" "12575" "17347" "15270" "11783"
## [25] "102626" "12493" "15254" "76884" "56702" "29858" "67784" "15368"
## [33] "21802" "239273" "18415" "13830" "17164" "17119" "16478" "71665"
## [41] "217344" "17254" "12444" "18538" "319166" "65972" "18128" "13663"
## [49] "17988" "70484" "21803" "67623" "12018" "22271" "13650" "17246"
## [57] "22062" "22401" "79201" "67941" "12578" "114714" "259277" "665433"
## [65] "16554" "105501" "56437" "19124" "16449" "15461" "20698" "12579"
## [73] "21812" "19734" "17122"
##
## [[22]]
## [1] "14958" "17132" "14229" "12571" "20111" "12010" "20393" "14678"
## [9] "544963" "12445" "67938" "106869" "67268" "26362" "15357" "69608"
## [17] "107652" "239273" "192657" "11651" "20322" "333433" "83397" "14782"
## [25] "16410" "65112" "12444" "20363" "71817" "328365" "13167" "56376"
## [33] "17988" "13521" "11732" "19341" "67399" "72155" "404710" "19342"
## [41] "19229" "20807" "56228" "70361" "218294" "54608" "20249" "66065"
## [49] "76687" "11474" "109785"
##
## [[23]]
## [1] "20198" "93692" "12306" "19883" "54371" "22022" "231507" "16828"
## [9] "193740" "18030" "17035" "12933" "20527" "57444" "56248" "13867"
## [17] "11540" "14751" "21991" "12575" "21881" "15212" "56421" "15481"
## [25] "13008" "50527" "83553" "14828" "20970" "15368" "11676" "18451"
## [33] "13866" "170750" "16478" "12452" "12842" "83397" "17886" "11520"
## [41] "20893" "11674" "18712" "17684" "17988" "16573"
##
## [[24]]
## [1] "16412" "17395" "17996" "15894" "226519" "22323" "16398" "11688"
## [9] "27375" "12331" "22793" "14678" "11465" "67938" "19354" "109700"
## [17] "21873" "13867" "76709" "67268" "22629" "11928" "16331" "19264"
## [25] "192176" "12385" "20970" "20779" "18643" "13866" "16332" "11502"
## [33] "60533" "12842" "17698" "11461" "12908" "17886" "330177" "16782"
## [41] "20130" "22376" "18516" "232975" "26411" "14786" "54353" "73341"
## [49] "69192" "12798" "11490" "22329"
##
## [[25]]
## [1] "12442" "15511" "15925" "15463" "12534" "215387" "193740" "73804"
## [9] "21881" "20878" "21351" "22137" "16162" "110257" "15481" "14056"
## [17] "72391" "83553" "12672" "14828" "19087" "18005" "18415" "231600"
## [25] "12235" "12326" "18125" "27214" "56292" "18550" "12330" "74451"
## [33] "17349" "12745" "11861" "13404" "22335"
##
## [[26]]
## [1] "20304" "12977" "15902" "15894" "21354" "240672" "98878" "19219"
## [9] "26397" "13660" "20303" "56722" "12608" "18030" "17873" "21847"
## [17] "381290" "20393" "16362" "20527" "12445" "14063" "56193" "75234"
## [25] "106869" "54199" "12575" "56336" "12505" "12519" "21942" "12051"
## [33] "211770" "17948" "11839" "19347" "55991" "17119" "18034" "16478"
## [41] "12045" "18577" "12633" "18037" "65112" "20893" "12444" "230073"
## [49] "16596" "56376" "71586" "19224" "17118"
##
## [[27]]
## [1] "93692" "18477" "16985" "76650" "53381" "22166" "56421" "68576"
## [9] "239273" "11927" "16478" "14381" "50493" "14782" "18104" "76408"
##
## [[28]]
## [1] "21973" "18671" "20181" "15925" "67283" "18477" "20238" "12257"
## [9] "78388" "11739" "22629" "21355" "11666" "73836" "239273" "433256"
## [17] "12908" "16413" "51798" "55936" "66437"
##
## [[29]]
## [1] "67804" "16784" "17113" "20111" "208449" "13867" "67300" "11928"
## [9] "13032" "69608" "12757" "22319" "108664" "232910" "13866" "14683"
## [17] "15893" "12725" "26413" "232975" "11487" "11774" "106572" "70349"
## [25] "56418" "11840" "68365" "67830" "11764" "50797" "70361" "271457"
## [33] "19063" "68581"
##
## [[30]]
## [1] "16828" "12894" "14751" "67834" "11739" "12868" "57279" "12858"
## [9] "14719" "228033" "11974" "108664" "66916" "67680" "12856" "16922"
## [17] "73834" "11973" "12857" "12369" "66108" "18104" "110826" "11949"
## [25] "66152" "12864" "51798" "12866" "67264" "110323" "57423" "66925"
## [33] "17449" "17448" "18293" "66694" "11950" "17992" "21871" "67126"
## [41] "66046" "68375" "12861" "66043" "11946" "13177" "20930" "109672"
## [49] "30057" "66144" "14661" "22335" "15159" "50799" "66335" "211253"
## [57] "11957" "12859" "225887" "27060" "22272" "78830" "97212" "12028"
## [65] "170731" "54405" "66594" "407785" "17993" "170718" "66576" "72900"
## [73] "67003" "11740" "11958" "68197" "11947"
##
## [[31]]
## [1] "16185" "16186" "16328" "12189" "14462" "17096" "68465" "171171"
## [9] "11487" "21871" "27060" "21838" "11630" "237847" "432442" "13837"
##
## [[32]]
## [1] "12367" "15894" "18671" "21354" "14964" "15040" "193740" "15018"
## [9] "66168" "11891" "16362" "110213" "13350" "12445" "14972" "12447"
## [17] "11739" "26362" "15270" "17075" "12757" "15481" "17308" "17096"
## [25] "14828" "103963" "15368" "232910" "12349" "16478" "12842" "18753"
## [33] "12611" "14991" "11674" "12444" "11828" "12122" "216150" "319166"
## [41] "12799" "19182" "110920" "18550" "12018" "56418" "27053" "20364"
## [49] "14156" "81489" "12215" "665433" "14528" "667977" "66144" "56437"
## [57] "12566" "66335" "19063" "12579" "246221" "22146" "216869" "22275"
## [65] "15512" "22142" "18670" "18412" "11740" "319164" "106344" "15007"
## [73] "630294" "319167" "20656" "14590" "66427" "319172" "15024" "15015"
## [81] "13728" "224860" "232440" "15370"
##
## [[33]]
## [1] "26943" "16852" "20194" "16828" "22027" "56791" "12894" "13476"
## [9] "22629" "17025" "18263" "11363" "109778" "68728" "12349" "433256"
## [17] "68465" "19186" "12908" "11674" "12892" "51798" "66925" "17449"
## [25] "17448" "77605" "170789" "11409" "13177" "22628" "66357" "56442"
##
## [[34]]
## [1] "14958" "68262" "16784" "212943" "13030" "26397"
## [7] "380711" "18477" "65107" "20527" "12445" "100503605"
## [13] "140780" "242705" "53378" "17025" "110257" "109778"
## [19] "192657" "53415" "18451" "12349" "233489" "224703"
## [25] "14934" "66943" "22228" "12725" "107566" "74136"
## [31] "69632" "12444" "11828" "12892" "68591" "15130"
## [37] "17896" "21969" "16596" "15467" "56786" "64898"
## [43] "72674" "71648" "21871" "219094" "27053" "21349"
## [49] "12346" "20739" "217232" "12215" "74257" "71946"
## [55] "12183" "15288" "67608" "54484" "383295" "19746"
## [61] "74334" "74645" "22439" "56209" "20617" "27060"
## [67] "14055" "18173" "59125" "11519" "11656"
##
## [[35]]
## [1] "16412" "22352" "19165" "56726" "16985" "17873" "20973" "227753"
## [9] "13867" "53313" "12575" "64383" "78286" "67784" "17913" "56421"
## [17] "16404" "16416" "29856" "20399" "13866" "433256" "12017" "12842"
## [25] "11461" "12908" "17886" "18104" "20259" "20893" "18125" "17896"
## [33] "18128" "11938" "21803" "67399" "13144"
##
## [[36]]
## [1] "15979" "68262" "217430" "11804" "23943" "109019" "12580" "13476"
## [9] "13350" "67834" "21881" "22629" "12868" "21351" "20168" "16404"
## [17] "66148" "11363" "83553" "66588" "66092" "66916" "13830" "68465"
## [25] "26379" "67680" "11513" "16922" "22187" "108954" "12452" "12842"
## [33] "12908" "11520" "170439" "22228" "232941" "11674" "110826" "66152"
## [41] "51798" "18712" "17448" "18606" "26411" "19016" "268301" "12861"
## [49] "72157" "66375" "11409"
##
## [[37]]
## [1] "20135" "27224" "15163" "22171" "22169" "54208"
## [7] "56248" "18968" "19361" "53421" "16881" "53378"
## [13] "59022" "18950" "15452" "110074" "11513" "12856"
## [19] "18577" "27061" "18538" "19075" "19891" "330959"
## [25] "100041294" "26370" "50773" "67967" "14156" "20930"
## [31] "68092" "66914" "74414" "19718" "72151" "16434"
## [37] "67665" "20018" "18100" "18969"
##
## [[38]]
## [1] "15902" "74134" "15483" "380711" "15900" "20430" "12927" "110213"
## [9] "14872" "12846" "19171" "76884" "29858" "52585" "11666" "15368"
## [17] "110172" "239273" "12349" "15452" "66054" "110208" "14782" "18104"
## [25] "76408" "51798" "67437" "56376" "70484" "50997" "64898" "11938"
## [33] "66397" "67399" "22271" "17748" "69051" "66375" "79201" "14528"
## [41] "109900" "109672" "74114"
##
## [[39]]
## [1] "12306" "12393" "12399" "20181" "226519" "14537" "27375" "11746"
## [9] "381290" "20238" "21873" "13867" "11540" "71973" "20583" "16416"
## [17] "109552" "20779" "217866" "19087" "239273" "219140" "13866" "18034"
## [25] "12842" "15893" "76408" "20893" "23942" "16782" "14200" "12978"
## [33] "17684" "328365" "18128" "56376" "19016" "116871" "67399" "17748"
##
## [[40]]
## [1] "15902" "11853" "14225" "19045" "27375" "21847" "21873" "15258"
## [9] "17948" "94246" "16478" "232941" "65112" "18550" "21803" "106572"
##
## [[41]]
## [1] "12317" "22027" "193740" "12608" "109019" "66286" "54124" "15270"
## [9] "107513" "15481" "50527" "107272" "14828" "67398" "11972" "226641"
## [17] "66482" "667373" "72661" "12611" "17768" "319166" "69019" "22631"
## [25] "16573" "13685" "16574" "218343" "27053" "67951" "665433" "71853"
## [33] "78943" "56529" "69065" "18045" "15957" "70640" "20624" "13665"
## [41] "66913" "22154" "76687" "56454" "15512" "20856"
##
## [[42]]
## [1] "17132" "66286" "239273" "69019" "53626" "20813" "56529" "18548"
## [9] "13482" "16909" "20910"
##
## [[43]]
## [1] "12776" "54371" "212943" "12334" "11688" "20393" "19271" "27984"
## [9] "11928" "12519" "58185" "17857" "12842" "12333" "15978" "11461"
## [17] "21819" "20363" "18125"
##
## [[44]]
## [1] "17219" "12428" "17218" "16828" "22027" "22171" "22627" "17217"
## [9] "107995" "20133" "56150" "12544" "57296" "12858" "53381" "14719"
## [17] "22384" "26441" "18263" "26445" "26440" "15452" "110074" "19359"
## [25] "218236" "19166" "22195" "12461" "18538" "26444" "110052" "21781"
## [33] "55936" "17216" "12330" "77605" "69192" "26446"
##
## [[45]]
## [1] "207521" "14534" "18129" "16450" "18519" "21416" "14357" "12234"
## [9] "109689"
##
## [[46]]
## [1] "11303" "19299" "11669" "66307" "224824" "110784" "74043" "76267"
## [9] "103737" "16890" "72535" "63959" "76263"
##
## [[47]]
## [1] "16835" "16825" "14766" "21885" "18187" "12614"
##
## [[48]]
## [1] "12043" "17869" "107771" "101490" "16206" "268903" "18432" "22234"
## [9] "16001" "20520" "22151" "16763" "24056" "14228" "16195" "58208"
## [17] "16598" "11518" "20148" "76199" "11512" "107094" "20539" "20509"
## [25] "16451" "97998" "12614" "76459" "21844"
##
## [[49]]
## [1] "21414" "17869" "107771" "16842" "13542" "14534" "15182" "18129"
## [9] "212398" "22059"
##
## [[50]]
## [1] "17869" "107771" "18432" "13537" "75751" "67134" "72515" "235036"
## [9] "226169" "20810" "27966" "71974" "59028" "101612" "70683" "67973"
## [17] "107094" "110109" "76130" "28126" "21453" "30877" "107071" "20509"
## [25] "68493" "18148" "338359" "70769" "66942"fgsea
We can use these leading edge genes to select genes strongly correlated with our condition and within an enriched gene set.
INTERFERON_Response_LE <- Act_minus_Rest_gseaRes$leadingEdge[[1]]
IR_LE <- Activated_minus_Resting[Activated_minus_Resting$ENTREZID %in% INTERFERON_Response_LE,
]
IR_LE[1:2, ]## ENTREZID SYMBOL baseMean log2FoldChange lfcSE stat pvalue
## 107 100038882 Isg15 738.5107 0.6976512 0.1574892 4.429836 9.430483e-06
## 1236 100702 Gbp6 1308.0094 0.8984211 0.1192259 7.535452 4.866453e-14
## padj newPadj
## 107 6.656254e-05 1.686925e-01
## 1236 8.937247e-13 9.271079e-10GSEA plots
We can also produce a GSEA style plot to visualize our enrichment in a pathway of interest using the plotEnrichment() function. We simply provide the pathway to plot and the ranking we used in test.
